Clone RT01046 Report

Search the DGRC for RT01046

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:46
Vector:pCR2.1
Associated Gene/TranscriptGsc-RC
Protein status:RT01046.pep: gold
Sequenced Size:1292

Associated Genes

Associations are from manual ordering of a clone or by a periodic analysis.
Gene Date Evidence
CG2851 2006-05-19 RT target
Gsc 2008-04-29 Release 5.5 accounting
Gsc 2008-08-15 Release 5.9 accounting
Gsc 2008-12-18 5.12 accounting

Clone Sequence Records

RT01046.complete Sequence

1292 bp (1292 high quality bases) assembled on 2008-07-29

GenBank Submission: BT028830

> RT01046.complete
GAAGTTATCAGTCGACATGCTGGCACAAATGGTAGAGACAAATTCCCCGC
CGGCGGGTTACACCCTCAAAAGGTCGCCCAGCGATCTCGGCGAGCAGCAG
CAGCCTCCAAGGCAGATCTCGCGATCTCCTGGCAACACGGCCGCCTATCA
CCTGACCACCGCCATGCTCCTGAACTCGCAGCAATGCGGCTACTTGGGCC
AGCGATTGCAGTCGGTCCTCCAGCAGCAGCACGCCCAACACCAGCAGTCC
CAAAGTCAAACTCCGTCCTCCGATGATGGCAGCCAGTCAGGTGTCACCAT
TCTGGAAGAGGAGAGAAGAGGAGGAGCCGCTGCCGCGTCTCTCTTCACTA
TTGACAGCATTTTGGGCTCTCGCCAACAGGGTGGAGGCACCGCTCCAAGC
CAAGGCAGCCACATCAGCAGCAATGGCAACCAAAATGGACTCACCTCGAA
TGGCATCAGTTTGGGTCTGAAAAGAAGTGGCGCCGAGTCCCCAGCCTCGC
CAAATTCAAACTCCAGTTCTAGCGCAGCCGCCAGTCCCATCCGACCGCAG
AGGGTTCCTGCCATGCTGCAGCATCCTGGCCTGCATCTGGGTCACTTGGC
GGCTGCAGCGGCGAGCGGTTTTGCCGCCTCTCCCTCGGATTTTTTGGTGG
CGTACCCCAACTTCTATCCAAACTACATGCACGCTGCTGCGGTGGCGCAT
GTGGCCGCTGCTCAGATGCAGGCACATGTGAGTGGAGCAGCCGCTGGATT
GTCGGGTCACGGGCACCATCCGCACCACCCCCATGGGCACCCCCACCATC
CACATCTGGGCGCACACCACCACGGACAGCACCACCTCAGCCATCTGGGT
CATGGACCTCCGCCGAAGAGGAAGCGTCGCCATCGCACCATCTTCACGGA
GGAGCAGTTGGAGCAACTGGAGGCCACCTTCGACAAAACACACTACCCAG
ATGTGGTGCTCCGGGAGCAACTTGCCCTCAAGGTGGATCTCAAAGAAGAA
CGAGTTGAGGTGTGGTTCAAGAACCGGCGGGCCAAGTGGCGCAAGCAAAA
GCGCGAGGAGCAGGAGCGGCTGCGGAAGCTGCAGGAGGAGCAATGCGGCA
GCACCACCAACGGCACCACCAACAGCAGCAGCGGCACCACCAGCTCCACC
GGCAACGGATCCCTAACCGTGAAGTGCCCCGGATCCGATCACTACTCCGC
GCAGCTAGTGCACATCAAGAGCGATCCCAATGGGTACAGCGATGCCGACG
AGTCATCCGACCTGGAAGTGGCCTAAAAGCTTTATCGACCAT

RT01046.complete Blast Records

Blast to MB8.fasta performed 2010-07-15 21:05:33
Subject Length Description Subject Range Query Range Score Percent Strand
Gsc-RB 2097 Gsc-RB 199..1458 17..1276 6270 99.8 Plus
Gsc-RA 2446 Gsc-RA 470..1729 17..1276 6270 99.8 Plus
Blast to d_melanogaster_OreR.fa performed 2019-03-15 21:05:47
Subject Length Description Subject Range Query Range Score Percent Strand
chr2L 23010047 chr2L 593581..594211 647..17 3095 99.4 Minus
chr2L 23010047 chr2L 592262..592627 1012..647 1800 99.5 Minus
chr2L 23010047 chr2L 584180..584448 1276..1008 1345 100 Minus
chr2L 23010047 chr2L 578281..578320 1008..1047 185 97.5 Plus
Blast to dmel-all-all_noncoding-r5.12.fasta performed on 2010-04-22 21:40:21 has no hits.
Blast to na_all.dmel.RELEASE6 performed 2019-03-15 21:05:44
Subject Length Description Subject Range Query Range Score Percent Strand
2L 23513712 2L 593588..594218 647..17 3125 99.7 Minus
2L 23513712 2L 592269..592634 1012..647 1830 100 Minus
2L 23513712 2L 584179..584447 1276..1008 1345 100 Minus
2L 23513712 2L 578277..578316 1008..1047 185 97.5 Plus
Blast to na_arms.dmel.RELEASE6 performed 2011-12-12 22:23:50
Subject Length Description Subject Range Query Range Score Percent Strand
2L 23513712 2L 593588..594218 647..17 3125 99.6 Minus
2L 23513712 2L 592269..592634 1012..647 1830 100 Minus
2L 23513712 2L 584179..584447 1276..1008 1345 100 Minus
Blast to na_te.dros performed on 2019-03-15 21:05:45 has no hits.

RT01046.complete Sim4 Records

Sim4 to d_melanogaster_OreR.fa performed 2019-03-15 21:06:53 Download gff for RT01046.complete
Subject Subject Range Query Range Percent Splice Strand
chr2L 584413..584446 1010..1043 100 <- Minus
chr2L 592265..592626 648..1009 99 <- Minus
chr2L 584177..584297 1159..1279 99 == Minus
chr2L 593581..594211 17..647 99   Minus
Sim4 to dmel-all-CDS-r5.12.fasta performed 2010-07-28 16:52:48 Download gff for RT01046.complete
Subject Subject Range Query Range Percent Splice Strand
Gsc-RB 199..1458 17..1276 99   Plus
Sim4 to dmel-all-CDS-r5.32.fasta performed 2011-03-16 21:08:02 Download gff for RT01046.complete
Subject Subject Range Query Range Percent Splice Strand
Gsc-RB 199..1458 17..1276 99   Plus
Sim4 to dmel-all-CDS-r5.52.fasta performed 2013-08-04 05:37:27 Download gff for RT01046.complete
Subject Subject Range Query Range Percent Splice Strand
Gsc-RD 163..1422 17..1276 99   Plus
Sim4 to dmel-all-CDS-r5.9.fasta performed 2008-11-04 14:47:50 Download gff for RT01046.complete
Subject Subject Range Query Range Percent Splice Strand
Gsc-RB 199..1458 17..1276 99   Plus
Sim4 to dmel-all-CDS-r6.02.fasta performed 2014-11-26 22:43:21 Download gff for RT01046.complete
Subject Subject Range Query Range Percent Splice Strand
Gsc-RD 163..1422 17..1276 99   Plus
Sim4 to dmel-all-transcript-r5.12.fasta performed 2010-07-28 16:52:48 Download gff for RT01046.complete
Subject Subject Range Query Range Percent Splice Strand
Gsc-RB 199..1461 17..1279 99   Plus
Sim4 to dmel-all-transcript-r5.32.fasta performed 2011-03-16 21:08:01 Download gff for RT01046.complete
Subject Subject Range Query Range Percent Splice Strand
Gsc-RB 199..1461 17..1279 99   Plus
Sim4 to dmel-all-transcript-r5.52.fasta performed 2013-08-04 05:37:27 Download gff for RT01046.complete
Subject Subject Range Query Range Percent Splice Strand
Gsc-RC 468..1730 17..1279 99   Plus
Sim4 to dmel-all-transcript-r5.9.fasta performed 2008-11-04 14:47:49 Download gff for RT01046.complete
Subject Subject Range Query Range Percent Splice Strand
Gsc-RB 199..1461 17..1279 99   Plus
Sim4 to dmel-all-transcript-r6.02.fasta performed 2014-11-26 22:43:21 Download gff for RT01046.complete
Subject Subject Range Query Range Percent Splice Strand
Gsc-RC 468..1730 17..1279 99   Plus
Sim4 to na_all.dmel.RELEASE6 performed 2019-03-15 21:06:53 Download gff for RT01046.complete
Subject Subject Range Query Range Percent Splice Strand
2L 584176..584445 1010..1279 99 <- Minus
2L 592272..592633 648..1009 100 <- Minus
2L 593588..594218 17..647 99   Minus
Sim4 to na_all.dmel.RELEASE6 performed 2019-03-15 21:06:53 Download gff for RT01046.complete
Subject Subject Range Query Range Percent Splice Strand
2L 584176..584445 1010..1279 99 <- Minus
2L 592272..592633 648..1009 100 <- Minus
2L 593588..594218 17..647 99   Minus
Sim4 to na_all.dmel.RELEASE6 performed 2019-03-15 21:06:53 Download gff for RT01046.complete
Subject Subject Range Query Range Percent Splice Strand
2L 584176..584445 1010..1279 99 <- Minus
2L 592272..592633 648..1009 100 <- Minus
2L 593588..594218 17..647 99   Minus
Sim4 to na_arms.dmel.RELEASE5 performed 2013-08-04 05:37:27 Download gff for RT01046.complete
Subject Subject Range Query Range Percent Splice Strand
arm_2L 584176..584445 1010..1279 99 <- Minus
arm_2L 592272..592633 648..1009 100 <- Minus
arm_2L 593588..594218 17..647 99   Minus
Sim4 to na_arms.dmel.RELEASE6 performed 2011-12-09 18:37:28 Download gff for RT01046.complete
Subject Subject Range Query Range Percent Splice Strand
2L 584176..584445 1010..1279 99 <- Minus
2L 592272..592633 648..1009 100 <- Minus
2L 593588..594218 17..647 99   Minus

RT01046.pep Sequence

Translation from 1 to 1275

> RT01046.pep
KLSVDMLAQMVETNSPPAGYTLKRSPSDLGEQQQPPRQISRSPGNTAAYH
LTTAMLLNSQQCGYLGQRLQSVLQQQHAQHQQSQSQTPSSDDGSQSGVTI
LEEERRGGAAAASLFTIDSILGSRQQGGGTAPSQGSHISSNGNQNGLTSN
GISLGLKRSGAESPASPNSNSSSSAAASPIRPQRVPAMLQHPGLHLGHLA
AAAASGFAASPSDFLVAYPNFYPNYMHAAAVAHVAAAQMQAHVSGAAAGL
SGHGHHPHHPHGHPHHPHLGAHHHGQHHLSHLGHGPPPKRKRRHRTIFTE
EQLEQLEATFDKTHYPDVVLREQLALKVDLKEERVEVWFKNRRAKWRKQK
REEQERLRKLQEEQCGSTTNGTTNSSSGTTSSTGNGSLTVKCPGSDHYSA
QLVHIKSDPNGYSDADESSDLEVA*

RT01046.pep Blast Records

Blast to dana-all-translation-r1.3.fasta performed 2019-03-15 18:05:08
Subject Length Description Subject Range Query Range Score Percent Strand
Dana\GF14876-PA 496 GF14876-PA 73..496 6..424 1253 83.2 Plus
Dana\GF15246-PA 589 GF15246-PA 50..128 289..367 255 53.2 Plus
Dana\GF20646-PA 405 GF20646-PA 78..142 288..351 249 64.6 Plus
Dana\GF20486-PA 731 GF20486-PA 542..646 281..384 249 45.9 Plus
Dana\GF15026-PA 325 GF15026-PA 3..65 289..351 239 58.7 Plus
Blast to dere-all-translation-r1.3.fasta performed 2019-03-15 18:05:09
Subject Length Description Subject Range Query Range Score Percent Strand
Dere\GG24636-PA 478 GG24636-PA 60..478 6..424 2174 98.1 Plus
Dere\GG22067-PA 898 GG22067-PA 551..619 289..357 252 60.9 Plus
Dere\GG24714-PA 416 GG24714-PA 87..151 288..351 249 64.6 Plus
Dere\GG18050-PA 769 GG18050-PA 520..624 281..384 249 45.9 Plus
Dere\GG24732-PA 352 GG24732-PA 3..65 289..351 241 58.7 Plus
Blast to dgri-all-translation-r1.3.fasta performed 2019-03-15 18:05:10
Subject Length Description Subject Range Query Range Score Percent Strand
Dgri\GH10501-PA 565 GH10501-PA 95..565 10..424 971 65.9 Plus
Dgri\GH11003-PA 262 GH11003-PA 1..261 10..215 341 60.6 Plus
Dgri\GH25307-PA 152 GH25307-PA 9..143 207..339 335 74.1 Plus
Dgri\GH11220-PA 376 GH11220-PA 66..130 288..351 251 64.6 Plus
Dgri\GH17865-PA 711 GH17865-PA 482..586 281..384 249 45.9 Plus
Blast to dmel-all-translation-r6.23.fasta performed 2019-03-25 11:27:25
Subject Length Description Subject Range Query Range Score Percent Strand
Gsc-PD 473 CG2851-PD 55..473 6..424 2205 100 Plus
Gsc-PC 415 CG2851-PC 1..415 10..424 2187 100 Plus
Gsc-PE 107 CG2851-PE 19..107 336..424 466 98.9 Plus
Vsx1-PB 837 CG4136-PB 134..455 43..351 316 31.8 Plus
Vsx1-PA 837 CG4136-PA 134..455 43..351 316 31.8 Plus
Vsx2-PA 640 CG33980-PA 57..290 159..351 284 35.2 Plus
Vsx2-PB 645 CG33980-PB 57..290 159..351 284 35.2 Plus
oc-PE 539 CG12154-PE 20..160 254..385 258 41.5 Plus
CG11294-PB 261 CG11294-PB 22..150 289..413 251 42.6 Plus
CG11294-PA 261 CG11294-PA 22..150 289..413 251 42.6 Plus
oc-PD 542 CG12154-PD 20..163 254..385 250 41.4 Plus
oc-PG 542 CG12154-PG 20..163 254..385 250 41.4 Plus
oc-PC 542 CG12154-PC 20..163 254..385 250 41.4 Plus
oc-PF 548 CG12154-PF 20..169 254..385 244 39.7 Plus
Drgx-PF 587 CG34340-PF 11..144 256..384 239 40.4 Plus
Drgx-PE 587 CG34340-PE 11..144 256..384 239 40.4 Plus
CG32532-PB 354 CG32532-PB 165..269 281..384 237 45.9 Plus
CG32532-PC 358 CG32532-PC 165..269 281..384 237 45.9 Plus
CG32532-PD 688 CG32532-PD 495..599 281..384 237 45.9 Plus
toy-PA 543 CG11186-PA 262..366 289..394 235 45.8 Plus
al-PA 408 CG3935-PA 81..145 287..351 229 60 Plus
Rx-PB 904 CG10052-PB 557..625 289..357 229 60.9 Plus
hbn-PA 409 CG33152-PA 66..227 252..364 223 37 Plus
Pph13-PA 357 CG2819-PA 4..70 285..351 221 56.7 Plus
ey-PB 624 CG1464-PB 194..293 289..392 221 43.8 Plus
ey-PA 838 CG1464-PA 408..507 289..392 221 43.8 Plus
ey-PC 857 CG1464-PC 427..526 289..392 221 43.8 Plus
ey-PD 898 CG1464-PD 468..567 289..392 221 43.8 Plus
otp-PJ 374 CG10036-PJ 59..176 234..351 219 36.9 Plus
otp-PK 416 CG10036-PK 59..176 234..351 219 36.9 Plus
otp-PC 271 CG10036-PC 12..73 290..351 216 56.5 Plus
otp-PF 313 CG10036-PF 12..73 290..351 216 56.5 Plus
otp-PG 264 CG10036-PG 6..66 291..351 214 57.4 Plus
otp-PH 306 CG10036-PH 6..66 291..351 214 57.4 Plus
otp-PI 367 CG10036-PI 109..169 291..351 214 57.4 Plus
otp-PE 409 CG10036-PE 109..169 291..351 214 57.4 Plus
toy-PC 526 CG11186-PC 262..362 289..394 211 44.9 Plus
Ptx1-PA 509 CG1447-PA 262..324 289..351 205 58.7 Plus
Ptx1-PC 514 CG1447-PC 267..329 289..351 205 58.7 Plus
B-H1-PA 544 CG5529-PA 24..357 49..349 205 25.4 Plus
unc-4-PC 588 CG6269-PC 30..306 89..354 205 30 Plus
unc-4-PB 588 CG6269-PB 30..306 89..354 205 30 Plus
Ptx1-PE 610 CG1447-PE 262..324 289..351 205 58.7 Plus
eyg-PC 670 CG10488-PC 285..446 228..383 204 32.7 Plus
eyg-PB 670 CG10488-PB 285..446 228..383 204 32.7 Plus
eyg-PA 670 CG10488-PA 285..446 228..383 204 32.7 Plus
repo-PA 612 CG31240-PA 303..405 290..388 203 42.7 Plus
gsb-n-PA 449 CG2692-PA 175..278 285..390 202 46.7 Plus
CG9876-PA 275 CG9876-PA 109..182 283..356 200 51.4 Plus
OdsH-PA 382 CG6352-PA 157..221 290..354 197 55.4 Plus
PHDP-PA 220 CG11182-PA 81..172 263..351 195 44.6 Plus
Blast to dmoj-all-translation-r1.3.fasta performed 2019-03-15 18:05:11
Subject Length Description Subject Range Query Range Score Percent Strand
Dmoj\GI18020-PA 538 GI18020-PA 62..538 7..424 870 64.9 Plus
Dmoj\GI23866-PA 623 GI23866-PA 67..145 289..367 254 53.2 Plus
Dmoj\GI21624-PA 397 GI21624-PA 68..132 288..351 252 64.6 Plus
Dmoj\GI16434-PA 614 GI16434-PA 425..529 281..384 252 45.9 Plus
Dmoj\GI19710-PA 884 GI19710-PA 551..619 289..357 247 60.9 Plus
Blast to dper-all-translation-r1.3.fasta performed 2019-03-15 18:05:12
Subject Length Description Subject Range Query Range Score Percent Strand
Dper\GL19249-PA 531 GL19249-PA 388..531 287..424 602 82.6 Plus
Dper\GL14778-PA 596 GL14778-PA 407..511 281..384 251 45.9 Plus
Dper\GL18872-PA 397 GL18872-PA 79..143 288..351 249 64.6 Plus
Dper\GL17060-PA 920 GL17060-PA 558..626 289..357 248 60.9 Plus
Dper\GL18665-PA 370 GL18665-PA 50..144 289..384 247 47.9 Plus
Blast to dpse-all-translation-r3.2.fasta performed 2019-03-15 18:05:13
Subject Length Description Subject Range Query Range Score Percent Strand
Dpse\GA15485-PA 527 GA15485-PA 384..527 287..424 602 82.6 Plus
Dpse\GA17785-PA 395 GA17785-PA 79..143 288..351 249 64.6 Plus
Dpse\GA23014-PA 684 GA23014-PA 495..599 281..384 249 45.9 Plus
Dpse\GA10035-PA 921 GA10035-PA 559..627 289..357 249 60.9 Plus
Dpse\GA15474-PA 376 GA15474-PA 3..65 289..351 242 58.7 Plus
Blast to dsec-all-translation-r1.3.fasta performed 2019-03-15 18:05:14
Subject Length Description Subject Range Query Range Score Percent Strand
Dsec\GM16652-PA 419 GM16652-PA 1..419 6..424 2185 99 Plus
Dsec\GM15784-PA 895 GM15784-PA 548..616 289..357 252 60.9 Plus
Dsec\GM16736-PA 410 GM16736-PA 81..145 288..351 251 64.6 Plus
Dsec\GM16755-PA 348 GM16755-PA 3..65 289..351 241 58.7 Plus
Dsec\GM21128-PA 140 GM21128-PA 29..97 296..360 224 59.4 Plus
Blast to dsim-all-translation-r1.4.fasta performed 2019-03-15 18:05:15
Subject Length Description Subject Range Query Range Score Percent Strand
Dsim\GD22947-PA 237 GD22947-PA 1..237 188..424 1275 100 Plus
Dsim\GD22946-PA 222 GD22946-PA 73..206 6..139 674 98.5 Plus
Dsim\GD23020-PA 410 GD23020-PA 81..145 288..351 251 64.6 Plus
Dsim\GD11547-PA 903 GD11547-PA 556..624 289..357 249 60.9 Plus
Dsim\GD23036-PA 355 GD23036-PA 1..70 282..351 243 54.3 Plus
Blast to dvir-all-translation-r1.2.fasta performed 2019-03-15 18:05:16
Subject Length Description Subject Range Query Range Score Percent Strand
Dvir\GJ19666-PA 556 GJ19666-PA 88..556 7..424 892 66 Plus
Dvir\GJ15837-PA 664 GJ15837-PA 475..556 281..357 253 53.7 Plus
Dvir\GJ17771-PA 381 GJ17771-PA 68..132 288..351 252 64.6 Plus
Dvir\GJ17468-PA 881 GJ17468-PA 541..609 289..357 248 60.9 Plus
Dvir\GJ19274-PA 269 GJ19274-PA 29..125 296..388 242 48.5 Plus
Blast to dwil-all-translation-r1.3.fasta performed 2019-03-15 18:05:17
Subject Length Description Subject Range Query Range Score Percent Strand
Dwil\GK24629-PA 460 GK24629-PA 1..460 10..424 928 67.7 Plus
Dwil\GK23788-PA 375 GK23788-PA 65..129 288..351 252 64.6 Plus
Dwil\GK25107-PA 638 GK25107-PA 449..553 281..384 250 45.9 Plus
Dwil\GK23335-PA 937 GK23335-PA 593..661 289..357 249 60.9 Plus
Dwil\GK13683-PA 552 GK13683-PA 262..366 289..387 246 48.1 Plus
Blast to dyak-all-translation-r1.3.fasta performed 2019-03-15 18:05:18
Subject Length Description Subject Range Query Range Score Percent Strand
Dyak\GE15985-PA 528 GE15985-PA 110..528 6..424 2166 97.6 Plus
Dyak\GE16769-PA 410 GE16769-PA 81..145 288..351 252 64.6 Plus
Dyak\GE12148-PA 906 GE12148-PA 559..627 289..357 252 60.9 Plus
Dyak\GE17381-PA 354 GE17381-PA 165..246 281..357 245 53.7 Plus
Dyak\GE16946-PA 353 GE16946-PA 3..65 289..351 240 58.7 Plus

RT01046.hyp Sequence

Translation from 17 to 1275

> RT01046.hyp
MLAQMVETNSPPAGYTLKRSPSDLGEQQQPPRQISRSPGNTAAYHLTTAM
LLNSQQCGYLGQRLQSVLQQQHAQHQQSQSQTPSSDDGSQSGVTILEEER
RGGAAAASLFTIDSILGSRQQGGGTAPSQGSHISSNGNQNGLTSNGISLG
LKRSGAESPASPNSNSSSSAAASPIRPQRVPAMLQHPGLHLGHLAAAAAS
GFAASPSDFLVAYPNFYPNYMHAAAVAHVAAAQMQAHVSGAAAGLSGHGH
HPHHPHGHPHHPHLGAHHHGQHHLSHLGHGPPPKRKRRHRTIFTEEQLEQ
LEATFDKTHYPDVVLREQLALKVDLKEERVEVWFKNRRAKWRKQKREEQE
RLRKLQEEQCGSTTNGTTNSSSGTTSSTGNGSLTVKCPGSDHYSAQLVHI
KSDPNGYSDADESSDLEVA*

RT01046.hyp Blast Records

Blast to dmel-all-translation-r6.02.fasta performed 2014-11-28 14:42:50
Subject Length Description Subject Range Query Range Score Percent Strand
Gsc-PD 473 CG2851-PD 55..473 1..419 2205 100 Plus
Gsc-PC 415 CG2851-PC 1..415 5..419 2187 100 Plus
Vsx1-PB 837 CG4136-PB 134..455 38..346 316 31.8 Plus
Vsx1-PA 837 CG4136-PA 134..455 38..346 316 31.8 Plus
Vsx2-PA 640 CG33980-PA 57..290 154..346 284 35.2 Plus