Clone RT01016 Report

Search the DGRC for RT01016

Clone and Library Details

Library:RT
Tissue Source:D melanogaster pooled RNA
Created by:
Date Registered:2006-04-14
Comments:TA cloning vector from Invitrogen
Original Plate Number:10
Well:16
Vector:pCR2.1
Associated Gene/Transcriptacj6-RF
Protein status:RT01016.pep: gold
Sequenced Size:1127

Associated Genes

Associations are from manual ordering of a clone or by a periodic analysis.
Gene Date Evidence
CG9151 2006-05-19 RT target
acj6 2008-04-29 Release 5.5 accounting
acj6 2008-08-15 Release 5.9 accounting
acj6 2008-12-18 5.12 accounting

Clone Sequence Records

RT01016.complete Sequence

1127 bp (1127 high quality bases) assembled on 2008-11-04

GenBank Submission: BT028815.2

> RT01016.complete
GAAGTTATCAGTCGACATGACAATGTCGATGTATTCGACGACGGATAAAA
TGAAAATGTCAGCGCCCAGTTGTTTTCCAGGACGCTACAGTCCCTCCTAT
CGAAGTTCGGAGCAAATGCGTCGCTGCATGCCAAATCCATCTGGTGATAT
CTTCGCGGGCATCAACGATGGAATCCTCAGCAGAGCGGAGGCCCTGGCCG
CCGTCGACATCCAGAAGCACCAAGCCCAGCATGTACATAGCCAAATGCCC
TCCCAAATTAAGCACGACGTCATGTACCATCATCACTCCATGAGTGGGCC
TCCCCAGCGTCCGTTGCAGGAAAATCCTTTTTCTCGACAGATGCACCACT
CGATGGACCAACTGGACATGCTGGATCCGACGGGCTCGATGACCACACTG
GCGCCCATCTCGGAGTCGCCGCTAACGCCCACACACCAACACCTGCACGG
TTCCTATCACAGCATGAATCACATGATGAGCCACCACCATCCGGGCACGT
TAAGTGGCCATACGGGGGGACATCATGGACACTCGGCGGTACATCATCCT
GTTATCACGGCGGCAGTGGCTGCCGCTGGCCTGCATCCCGACACAGATAC
CGATCCTCGCGAGCTGGAGGCGTTTGCGGAGCGATTCAAGCAGCGGCGCA
TCAAGCTGGGTGTCACGCAGGCGGACGTGGGCAAAGCCCTGGCCAATCTC
AAGTTACCTGGCGTCGGAGCGCTGTCGCAGAGCACGATCTGTCGATTCGA
GAGCCTGACCCTGTCCCACAACAACATGATCGCCCTTAAGCCCATCCTGC
AGGCGTGGCTCGAGGAGGCCGAGGCGCAGGCGAAAAACAAGCGGCGCGAT
CCGGATGCGCCCAGTGTCCTGCCGGCGGGCGAAAAGAAAAGGACTTCCAT
TGCGGCACCTGAAAAGCGTTCTCTGGAAGCCTACTTCGCCGTCCAGCCGA
GGCCATCCGGTGAGAAAATCGCAGCGATTGCCGAAAAGCTGGATTTGAAG
AAAAACGTGGTGCGCGTCTGGTTCTGCAATCAACGTCAAAAACAAAAACG
TATAGTTAGTAGTGTAACACCATCAATGACTGGCCACGGTTCGGCGGGAT
TTGGATACTGAAAGCTTTATCGACCAT

RT01016.complete Blast Records

Blast to MB8.fasta performed 2010-07-15 21:12:45
Subject Length Description Subject Range Query Range Score Percent Strand
acj6.d 3094 acj6.d 356..1105 142..891 3750 100 Plus
acj6-RA 2080 acj6-RA 356..1105 142..891 3750 100 Plus
acj6.a 2336 acj6.a 356..1105 142..891 3750 100 Plus
acj6.d 3094 acj6.d 1107..1331 887..1111 1125 100 Plus
acj6-RA 2080 acj6-RA 1107..1331 887..1111 1125 100 Plus
acj6.a 2336 acj6.a 1107..1331 887..1111 1125 100 Plus
acj6.d 3094 acj6.d 140..266 16..142 635 100 Plus
acj6-RA 2080 acj6-RA 140..266 16..142 635 100 Plus
acj6.a 2336 acj6.a 140..266 16..142 635 100 Plus
Blast to d_melanogaster_OreR.fa performed 2019-03-16 01:58:51
Subject Length Description Subject Range Query Range Score Percent Strand
chrX 22417052 chrX 15244152..15244385 892..659 1170 100 Minus
chrX 22417052 chrX 15244680..15244881 519..318 1010 100 Minus
chrX 22417052 chrX 15261398..15261575 320..143 890 100 Minus
chrX 22417052 chrX 15243158..15243324 1053..887 835 100 Minus
chrX 22417052 chrX 15244460..15244603 661..518 720 100 Minus
chrX 22417052 chrX 15268060..15268187 143..16 640 100 Minus
chrX 22417052 chrX 15243043..15243104 1111..1050 310 100 Minus
Blast to dmel-all-all_noncoding-r5.12.fasta performed on 2010-04-22 21:39:54 has no hits.
Blast to na_all.dmel.RELEASE6 performed 2019-03-16 01:58:50
Subject Length Description Subject Range Query Range Score Percent Strand
X 23542271 X 15354226..15354459 892..659 1170 100 Minus
X 23542271 X 15354754..15354955 519..318 1010 100 Minus
X 23542271 X 15371511..15371688 320..143 890 100 Minus
X 23542271 X 15353221..15353387 1053..887 835 100 Minus
X 23542271 X 15354534..15354677 661..518 720 100 Minus
X 23542271 X 15378188..15378315 143..16 640 100 Minus
X 23542271 X 15353106..15353167 1111..1050 310 100 Minus
Blast to na_arms.dmel.RELEASE6 performed 2011-12-12 22:30:31
Subject Length Description Subject Range Query Range Score Percent Strand
X 23527363 X 15362324..15362557 892..659 1170 100 Minus
X 23527363 X 15362852..15363053 519..318 1010 100 Minus
X 23527363 X 15379609..15379786 320..143 890 100 Minus
X 23527363 X 15361319..15361485 1053..887 835 100 Minus
X 23527363 X 15362632..15362775 661..518 720 100 Minus
X 23527363 X 15386286..15386413 143..16 640 100 Minus
X 23527363 X 15361204..15361265 1111..1050 310 100 Minus
Blast to na_te.dros performed on 2019-03-16 01:58:50 has no hits.

RT01016.complete Sim4 Records

Sim4 to d_melanogaster_OreR.fa performed 2019-03-16 02:00:01 Download gff for RT01016.complete
Subject Subject Range Query Range Percent Splice Strand
chrX 15243162..15243319 892..1049 100 <- Minus
chrX 15243030..15243104 1050..1123 94 <- Minus
chrX 15244153..15244384 660..891 100 <- Minus
chrX 15244462..15244602 519..659 100 <- Minus
chrX 15244681..15244879 320..518 100 <- Minus
chrX 15261399..15261575 143..319 100 <- Minus
chrX 15268061..15268187 16..142 100   Minus
Sim4 to dmel-all-CDS-r5.12.fasta performed 2010-07-28 16:52:44 Download gff for RT01016.complete
Subject Subject Range Query Range Percent Splice Strand
acj6-RF 1..1095 17..1111 100   Plus
Sim4 to dmel-all-CDS-r5.32.fasta performed 2011-03-16 21:18:37 Download gff for RT01016.complete
Subject Subject Range Query Range Percent Splice Strand
acj6-RD 214..1185 141..1111 99   Plus
acj6-RD 1..124 17..140 100 -- Plus
Sim4 to dmel-all-CDS-r5.52.fasta performed 2013-08-04 06:42:30 Download gff for RT01016.complete
Subject Subject Range Query Range Percent Splice Strand
acj6-RF 1..1095 17..1111 100   Plus
Sim4 to dmel-all-CDS-r5.9.fasta performed 2008-07-21 15:48:35 Download gff for RT01016.complete
Subject Subject Range Query Range Percent Splice Strand
acj6-RF 1..1095 17..1111 100   Plus
Sim4 to dmel-all-CDS-r6.02.fasta performed 2014-11-27 04:53:22 Download gff for RT01016.complete
Subject Subject Range Query Range Percent Splice Strand
acj6-RF 1..1095 17..1111 100   Plus
Sim4 to dmel-all-transcript-r5.12.fasta performed 2010-07-28 16:52:43 Download gff for RT01016.complete
Subject Subject Range Query Range Percent Splice Strand
acj6-RF 140..1249 16..1124 99   Plus
Sim4 to dmel-all-transcript-r5.32.fasta performed 2011-03-16 21:18:37 Download gff for RT01016.complete
Subject Subject Range Query Range Percent Splice Strand
acj6-RD 140..264 16..140 100 -- Plus
acj6-RD 354..1339 141..1124 99   Plus
Sim4 to dmel-all-transcript-r5.52.fasta performed 2013-08-04 06:42:30 Download gff for RT01016.complete
Subject Subject Range Query Range Percent Splice Strand
acj6-RF 140..1249 16..1124 99   Plus
Sim4 to dmel-all-transcript-r5.9.fasta performed 2008-11-04 17:36:32 Download gff for RT01016.complete
Subject Subject Range Query Range Percent Splice Strand
acj6-RF 140..1249 16..1124 99   Plus
Sim4 to dmel-all-transcript-r6.02.fasta performed 2014-11-27 04:53:22 Download gff for RT01016.complete
Subject Subject Range Query Range Percent Splice Strand
acj6-RF 750..1859 16..1124 99   Plus
Sim4 to na_all.dmel.RELEASE6 performed 2019-03-16 02:00:01 Download gff for RT01016.complete
Subject Subject Range Query Range Percent Splice Strand
X 15353092..15353167 1050..1124 94 <- Minus
X 15353225..15353382 892..1049 100 <- Minus
X 15354227..15354458 660..891 100 <- Minus
X 15354536..15354676 519..659 100 <- Minus
X 15354755..15354953 320..518 100 <- Minus
X 15371512..15371688 143..319 100 <- Minus
X 15378189..15378315 16..142 100   Minus
Sim4 to na_all.dmel.RELEASE6 performed 2019-03-16 02:00:01 Download gff for RT01016.complete
Subject Subject Range Query Range Percent Splice Strand
X 15353092..15353167 1050..1124 94 <- Minus
X 15353225..15353382 892..1049 100 <- Minus
X 15354227..15354458 660..891 100 <- Minus
X 15354536..15354676 519..659 100 <- Minus
X 15354755..15354953 320..518 100 <- Minus
X 15371512..15371688 143..319 100 <- Minus
X 15378189..15378315 16..142 100   Minus
Sim4 to na_all.dmel.RELEASE6 performed 2019-03-16 02:00:01 Download gff for RT01016.complete
Subject Subject Range Query Range Percent Splice Strand
X 15353092..15353167 1050..1124 94 <- Minus
X 15353225..15353382 892..1049 100 <- Minus
X 15354227..15354458 660..891 100 <- Minus
X 15354536..15354676 519..659 100 <- Minus
X 15354755..15354953 320..518 100 <- Minus
X 15371512..15371688 143..319 100 <- Minus
X 15378189..15378315 16..142 100   Minus
Sim4 to na_arms.dmel.RELEASE5 performed 2013-08-04 06:42:30 Download gff for RT01016.complete
Subject Subject Range Query Range Percent Splice Strand
arm_X 15247125..15247200 1050..1124 94 <- Minus
arm_X 15247258..15247415 892..1049 100 <- Minus
arm_X 15248260..15248491 660..891 100 <- Minus
arm_X 15248569..15248709 519..659 100 <- Minus
arm_X 15248788..15248986 320..518 100 <- Minus
arm_X 15265545..15265721 143..319 100 <- Minus
arm_X 15272222..15272348 16..142 100   Minus
Sim4 to na_arms.dmel.RELEASE6 performed 2011-12-09 18:49:51 Download gff for RT01016.complete
Subject Subject Range Query Range Percent Splice Strand
X 15362325..15362556 660..891 100 <- Minus
X 15362634..15362774 519..659 100 <- Minus
X 15362853..15363051 320..518 100 <- Minus
X 15379610..15379786 143..319 100 <- Minus
X 15386287..15386413 16..142 100   Minus
X 15361190..15361265 1050..1124 94 <- Minus
X 15361323..15361480 892..1049 100 <- Minus

RT01016.pep Sequence

Translation from 1 to 1110

> RT01016.pep
KLSVDMTMSMYSTTDKMKMSAPSCFPGRYSPSYRSSEQMRRCMPNPSGDI
FAGINDGILSRAEALAAVDIQKHQAQHVHSQMPSQIKHDVMYHHHSMSGP
PQRPLQENPFSRQMHHSMDQLDMLDPTGSMTTLAPISESPLTPTHQHLHG
SYHSMNHMMSHHHPGTLSGHTGGHHGHSAVHHPVITAAVAAAGLHPDTDT
DPRELEAFAERFKQRRIKLGVTQADVGKALANLKLPGVGALSQSTICRFE
SLTLSHNNMIALKPILQAWLEEAEAQAKNKRRDPDAPSVLPAGEKKRTSI
AAPEKRSLEAYFAVQPRPSGEKIAAIAEKLDLKKNVVRVWFCNQRQKQKR
IVSSVTPSMTGHGSAGFGY*

RT01016.pep Blast Records

Blast to dana-all-translation-r1.3.fasta performed 2019-03-15 18:03:57
Subject Length Description Subject Range Query Range Score Percent Strand
Dana\GF21043-PA 330 GF21043-PA 73..330 114..369 1351 98.8 Plus
Dana\GF21040-PA 131 GF21040-PA 1..118 8..106 504 83.1 Plus
Dana\GF14202-PA 918 GF14202-PA 692..890 185..369 351 45.1 Plus
Dana\GF14200-PA 622 GF14200-PA 453..606 208..355 347 48.4 Plus
Dana\GF12353-PA 1013 GF12353-PA 833..1012 201..359 242 32.8 Plus
Blast to dere-all-translation-r1.3.fasta performed 2019-03-15 18:03:58
Subject Length Description Subject Range Query Range Score Percent Strand
Dere\GG19406-PA 396 GG19406-PA 1..396 6..369 1907 91.9 Plus
Dere\GG14388-PA 690 GG14388-PA 206..363 190..352 400 51.5 Plus
Dere\GG23791-PA 604 GG23791-PA 435..588 208..355 348 48.4 Plus
Dere\GG23792-PA 909 GG23792-PA 683..881 185..369 348 44.1 Plus
Dere\GG23353-PA 1008 GG23353-PA 828..1007 201..359 245 32.8 Plus
Blast to dgri-all-translation-r1.3.fasta performed 2019-03-15 18:03:58
Subject Length Description Subject Range Query Range Score Percent Strand
Dgri\GH17948-PA 320 GH17948-PA 60..320 111..369 1370 98.5 Plus
Dgri\GH17946-PA 128 GH17946-PA 1..121 6..107 523 84.3 Plus
Dgri\GH15364-PA 442 GH15364-PA 225..382 190..352 397 51.5 Plus
Dgri\GH10117-PA 540 GH10117-PA 314..510 187..369 346 45.5 Plus
Dgri\GH10114-PA 620 GH10114-PA 451..604 208..355 346 48.4 Plus
Blast to dmel-all-translation-r6.23.fasta performed 2019-03-25 11:20:16
Subject Length Description Subject Range Query Range Score Percent Strand
acj6-PF 364 CG9151-PF 1..364 6..369 1924 100 Plus
acj6-PI 366 CG9151-PI 1..366 6..369 1911 99.5 Plus
acj6-PE 375 CG9151-PE 1..375 6..369 1902 97.1 Plus
acj6-PM 383 CG9151-PM 1..383 6..369 1894 95 Plus
acj6-PD 394 CG9151-PD 1..394 6..369 1883 92.4 Plus
acj6-PA 396 CG9151-PA 1..396 6..369 1870 91.9 Plus
acj6-PH 357 CG9151-PH 1..357 6..369 1868 98.1 Plus
acj6-PJ 359 CG9151-PJ 1..359 6..369 1855 97.5 Plus
acj6-PC 368 CG9151-PC 1..368 6..369 1846 95.2 Plus
acj6-PL 376 CG9151-PL 1..376 6..369 1838 93.2 Plus
acj6-PK 370 CG9151-PK 1..370 6..369 1833 94.7 Plus
acj6-PG 387 CG9151-PG 1..387 6..369 1827 90.6 Plus
acj6-PN 378 CG9151-PN 1..378 6..369 1825 92.7 Plus
vvl-PD 427 CG10037-PD 147..362 134..351 393 45.3 Plus
vvl-PA 427 CG10037-PA 147..362 134..351 393 45.3 Plus
vvl-PC 713 CG10037-PC 147..362 134..351 393 45.3 Plus
vvl-PE 726 CG10037-PE 147..362 134..351 393 45.3 Plus
vvl-PF 742 CG10037-PF 147..362 134..351 393 45.3 Plus
nub-PE 601 CG34395-PE 299..585 65..355 366 35.3 Plus
nub-PD 601 CG34395-PD 299..585 65..355 366 35.3 Plus
nub-PB 961 CG34395-PB 659..945 65..355 366 35.3 Plus
pdm2-PA 498 CG12287-PA 187..470 113..369 359 36.7 Plus
pdm2-PD 893 CG12287-PD 582..865 113..369 359 36.7 Plus
pdm2-PC 893 CG12287-PC 582..865 113..369 359 36.7 Plus
pdm2-PB 893 CG12287-PB 582..865 113..369 359 36.7 Plus
pdm3-PE 1273 CG42698-PE 1111..1272 201..359 268 37 Plus
pdm3-PA 994 CG11641-PA 814..993 201..359 233 32.8 Plus
pdm3-PC 1291 CG42698-PC 1111..1290 201..359 233 32.8 Plus
pdm3-PF 1292 CG42698-PF 1111..1291 201..359 232 32.6 Plus
Blast to dmoj-all-translation-r1.3.fasta performed 2019-03-15 18:03:59
Subject Length Description Subject Range Query Range Score Percent Strand
Dmoj\GI15417-PA 180 GI15417-PA 1..180 118..297 949 99.4 Plus
Dmoj\GI15415-PA 138 GI15415-PA 1..118 8..106 507 83.9 Plus
Dmoj\GI12964-PA 716 GI12964-PA 176..380 152..352 399 44.5 Plus
Dmoj\GI14486-PA 589 GI14486-PA 420..573 208..355 349 48.4 Plus
Dmoj\GI14490-PA 559 GI14490-PA 331..528 186..369 333 44.8 Plus
Blast to dper-all-translation-r1.3.fasta performed 2019-03-15 18:03:59
Subject Length Description Subject Range Query Range Score Percent Strand
Dper\GL14745-PA 168 GL14745-PA 1..168 130..297 875 98.8 Plus
Dper\GL14743-PA 125 GL14743-PA 1..120 6..106 516 83.3 Plus
Dper\GL19353-PA 619 GL19353-PA 449..602 208..355 349 48.4 Plus
Dper\GL19359-PA 361 GL19359-PA 135..333 185..369 345 44.6 Plus
Dper\GL13276-PA 681 GL13276-PA 285..394 242..352 280 48.6 Plus
Blast to dpse-all-translation-r3.2.fasta performed 2019-03-15 18:04:00
Subject Length Description Subject Range Query Range Score Percent Strand
Dpse\GA26624-PA 294 GA26624-PA 37..294 114..369 1350 98.1 Plus
Dpse\GA26548-PA 138 GA26548-PA 1..118 8..106 504 83.1 Plus
Dpse\GA10024-PA 729 GA10024-PA 220..377 190..352 400 51.5 Plus
Dpse\GA11534-PA 964 GA11534-PA 715..936 164..369 351 41.4 Plus
Dpse\GA19468-PA 620 GA19468-PA 450..603 208..355 350 48.4 Plus
Blast to dsec-all-translation-r1.3.fasta performed 2019-03-15 18:04:01
Subject Length Description Subject Range Query Range Score Percent Strand
Dsec\GM25017-PA 258 GM25017-PA 1..258 114..369 1354 99.2 Plus
Dsec\GM22206-PA 207 GM22206-PA 1..132 6..107 513 76.5 Plus
Dsec\GM14797-PA 617 GM14797-PA 206..363 190..352 402 51.5 Plus
Dsec\GM26870-PA 601 GM26870-PA 432..585 208..355 349 48.4 Plus
Dsec\GM26881-PA 889 GM26881-PA 688..861 208..369 349 44.1 Plus
Blast to dsim-all-translation-r1.4.fasta performed 2019-03-15 18:04:01
Subject Length Description Subject Range Query Range Score Percent Strand
Dsim\GD15807-PA 266 GD15807-PA 8..266 113..369 1353 98.8 Plus
Dsim\GD15804-PA 207 GD15804-PA 1..132 6..107 513 76.5 Plus
Dsim\GD13969-PA 759 GD13969-PA 280..437 190..352 397 51.5 Plus
Dsim\GD23847-PA 889 GD23847-PA 663..861 185..369 350 44.1 Plus
Dsim\GD23844-PA 601 GD23844-PA 432..585 208..355 349 48.4 Plus
Blast to dvir-all-translation-r1.2.fasta performed 2019-03-15 18:04:02
Subject Length Description Subject Range Query Range Score Percent Strand
Dvir\GJ16375-PA 385 GJ16375-PA 1..385 6..369 1881 93 Plus
Dvir\GJ13109-PA 441 GJ13109-PA 224..381 190..352 396 51.5 Plus
Dvir\GJ16273-PA 597 GJ16273-PA 428..581 208..355 348 48.4 Plus
Dvir\pdm2-PA 707 GJ16274-PA 504..677 208..369 346 45.3 Plus
Dvir\GJ21706-PA 1080 GJ21706-PA 900..1079 201..359 243 32.8 Plus
Blast to dwil-all-translation-r1.3.fasta performed 2019-03-15 18:04:03
Subject Length Description Subject Range Query Range Score Percent Strand
Dwil\GK20016-PA 264 GK20016-PA 6..264 113..369 1348 98.5 Plus
Dwil\GK20014-PA 131 GK20014-PA 1..120 6..106 515 83.3 Plus
Dwil\GK12556-PA 729 GK12556-PA 227..384 190..352 400 51.5 Plus
Dwil\GK15505-PA 614 GK15505-PA 399..597 165..355 352 44.6 Plus
Dwil\GK15507-PA 523 GK15507-PA 320..493 208..369 348 45.3 Plus
Blast to dyak-all-translation-r1.3.fasta performed 2019-03-15 18:04:03
Subject Length Description Subject Range Query Range Score Percent Strand
Dyak\GE16054-PA 218 GE16054-PA 1..218 114..369 1092 83.7 Plus
Dyak\GE16052-PA 159 GE16052-PA 1..135 6..110 510 75.6 Plus
Dyak\GE21576-PA 690 GE21576-PA 206..363 190..352 400 51.5 Plus
Dyak\GE18594-PA 603 GE18594-PA 434..587 208..355 349 48.4 Plus
Dyak\GE18596-PA 903 GE18596-PA 677..875 185..369 349 44.1 Plus

RT01016.hyp Sequence

Translation from 16 to 1110

> RT01016.hyp
MTMSMYSTTDKMKMSAPSCFPGRYSPSYRSSEQMRRCMPNPSGDIFAGIN
DGILSRAEALAAVDIQKHQAQHVHSQMPSQIKHDVMYHHHSMSGPPQRPL
QENPFSRQMHHSMDQLDMLDPTGSMTTLAPISESPLTPTHQHLHGSYHSM
NHMMSHHHPGTLSGHTGGHHGHSAVHHPVITAAVAAAGLHPDTDTDPREL
EAFAERFKQRRIKLGVTQADVGKALANLKLPGVGALSQSTICRFESLTLS
HNNMIALKPILQAWLEEAEAQAKNKRRDPDAPSVLPAGEKKRTSIAAPEK
RSLEAYFAVQPRPSGEKIAAIAEKLDLKKNVVRVWFCNQRQKQKRIVSSV
TPSMTGHGSAGFGY*

RT01016.hyp Blast Records

Blast to dmel-all-translation-r6.02.fasta performed 2014-11-28 16:00:26
Subject Length Description Subject Range Query Range Score Percent Strand
acj6-PF 364 CG9151-PF 1..364 1..364 1924 100 Plus
acj6-PI 366 CG9151-PI 1..366 1..364 1911 99.5 Plus
acj6-PE 375 CG9151-PE 1..375 1..364 1902 97.1 Plus
acj6-PM 383 CG9151-PM 1..383 1..364 1894 95 Plus
acj6-PH 357 CG9151-PH 1..357 1..364 1868 98.1 Plus