Sequence
atgc intronic sequence ATGC exonic sequence...cactaaattccatgtttatagcttgaatgttagctcacaaaataaatcaatctttattgatgtagtgggtaatataatttcttgactgaattcctttcagGCTATAATGGAGGTTGGAGAGGTAATACAATTTTATGATTCTGATAAGCGCTTTCCTGCATGGGGATTTGGGGGAAGGACAATTGATGGTACCATATCAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0030g00540.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA03G40210.1 (Glycine max), 3'ss of exon 11
-cactaaattccatgtttatagcttgaatgttagctcacaaaataaatcaatctttattgatgtagtgggtaatataatttcttgactgaattcctttcagGCTATAATGGAGGTTGGAGAGGTAATACAATTTTATGATTCTGATAAGCGCTTTCCTGCATGGGGATTTGGGGGAAGGACAATTGATGGTACCATATCAC
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atgtatccttttacttcattatgttactgactaaattcaataacggggtggcattgtctgatccattgttttgcctaaccaacacagt-atttatctgtagGCTATAATGGAGGTTGGAGAAGTTATTCAGTTTTATGATTCTGATAGGCAGTTTCCTGCTTGGGGATTTGGAGGAAAGATACCTGGTGGTACTGTATCCC
upper sequence: Vv14s0030g00540.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA19G42790.1 (Glycine max), 3'ss of exon 11
cactaaattccatgtttatagctt--gaatgttagctcacaaaataaatcaatctttattgatgtagtgggtaata----taatttcttgactga----------attccttt-cagGCTATAATGGAGGTTGGAGAGGTAATACAATTTTATGATTCTGATAAGCGCTTTCCTGCATGGGGATTTGGGGGAAGGACAATTGATGGTACCATATCAC
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--gtaagcttgatatctacttcttgtgaatgaatgattatgaacttt-tcaatcattaac-atgtgaagcgcaatagatccattgttttgcctaaccaacacagtatttatctgtagGCTATAATGGAGGTTGGAGAAGTTATTCAGTTTTATGATTCTGATAGGCAGTTTCCTGCTTGGGGCTTTGGAGGAAAGATACCTGGTGGTACCGTATCCC
upper sequence: Vv14s0030g00540.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA03G40220.1 (Glycine max), 3'ss of exon 11
------------------------cactaaat--tccatgtttat-agctt---gaatgttagctcacaaaataaatcaa--tctttattgat----gtagtggg-------taatataat------ttcttgactga----------attccttt-cagGCTATAATGGAGGTTGGAGAGGTAATACAATTTTATGATTCTGATAAGCGCTTTCCTGCATGGGGATTTGGGGGAAGGACAATTGATGGTACCATATCAC
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gtaaccttgatatctactacttgtcaatgaatgatatatgattctgagcttttcaatcattaacttatgaaacacaataaggtcctgactaacttcaatagtgggggtggcattatctgatccattgtttttgcctaattaacacaatatttatttgtagGCTGTAATGGAGGTTGGAGAAGTTATTCAGTTTTATGATTCTGATAGGCAGTTTCCTGCTTGGGGTTTTGGAGGGAAGCTACCTGGTGGTACTGTATCCC
upper sequence: Vv14s0030g00540.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT1G08860.1 (Arabidopsis thaliana), 3'ss of exon 11
cactaaattccatgtttatagcttgaatgttagctcacaaaataaatcaatctttattgatgtagtgggtaa-tataatttcttgactgaattcctttcagGCTATAATGGAGGTTGGAGAGGTAATACAATTTTATGATTCTGATAAGCGCTTTCCTGCATGGGGATTTGGGGGAAGGACAATTGATGGTACCATATCAC
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ctcagtataaaaccatcgtctcattaatttttctttcagtgtcgtgattcccttgatctattgtatgtataaacataatttggcttctgt-ttttttccagGCTATTATGGAAGTAGGAGAGGTCATCCAGTTTTATGATTCTGATAAGCGGTTTCCTGCCTGGGGGTTTGGAGGAAGAACATCGGATGGTTCTGTGTCCCMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|110362594|gb|EC926138.1|EC926138EST: AGTTCAATGCTTACCAACAG GCTATAATGGAGGTTGGAGAGGTAATACAATTTTATGATTGTGATAAGCGC
genomic: AGTTCAATGCTTACCAACAGgtgaggcttc ... ttcctttcagGCTATAATGGAGGTTGGAGAGGTAATACAATTTTATGATTCTGATAAGCGC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atcaatctttattgatgtagtgggtaatataatttcttgactgaattcctttcagGCTATAATGGAGGTTGGAGAGGTAATACAATTTTATGATTCTGATAAGCGCTTTCCTGCATGGGGATTTGGGGGAAGGACAATTGATGGTACCATATCAC
tcttgac putative branch site (score: 3)
ttcctttc putative PPT
taatataatttcttga TA-rich tract
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cactaaattccatgtttatagcttgaatgttagctcacaaaataaatcaatctttattgatgtagtgggtaatataatttcttgactgaattcctttcagGCTATAATGGAGGTTGGAGAGGTAATACAATTTTATGATTCTGATAAGCGCTTTCCTGCATGGGGATTTGGGGGAAGGACAATTGATGGTACCATATCAC
cactaaa
- - - - -ccatgtt
- - - - - - - - - tagcttg
- - - - - - - - - - - - - - - - - - - aaaataa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tagtggg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgactga