Sequence
atgc intronic sequence ATGC exonic sequencegtattaatactaatctgtaatttgattgggtagtaaataaaaataatgtgaaaaattatcgcgtgtttgtctaagtaattgttggttttccttcacactcttatgatcctgcattgttttgatcattctgattgatcttacgagtagGTCAGATCCAAAGAGGTTGGCAAGCACACTTCAGCGGGAGAATGAAGAATCATGCACAACTTATAACATGCTAAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0004g01770.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA11G14020.1 (Glycine max), 3'ss of exon 6
gtattaatacta---atctgtaatttga----ttgggtagtaaataaaaataatgtgaaaaattatcgcgtgtt--------tgtctaa-gtaattgttggttttccttcacactcttatg----atcctgcattgtttt---gatcattctgattgatcttacgagtagGTCAGATCCAAAGAGGTTGGCAAGCACACTTCAGCG----GGAGAATGAAGAATCATGCACAACTTATAACATGCTAAAG
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gtattaagattttgcatttttagttttagttttttcatttgcatttgaaattatctgttgaataattgtttgctacaagggacatcaaatagaaatgttc-tgttcctttattagttgataaccaattctaaatttctttcttaactctttttcttcaatttttgcatagGAGTGATCCAAAGAGAATAGCAGACA-ACTTAAGAACGACAGAGAATGAAGAATCATGCACAACTTATAATATGTTGAAG
upper sequence: Vv06s0004g01770.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA11G14000.1 (Glycine max), 3'ss of exon 7
--------------gtattaata---ctaatctgtaatttga----ttgggtagtaaataaaaataatgtgaaaaattatcgcgtgtt-------tgtcta--agtaattgttggttttccttcacactctta--tgatcctgcattgttttgatcattctgattgatcttacgagtagGTCAGATCCAAAGAGGTTGGCAAGCACACTTCA---GCGGGAGAATGAAGAATCATGCACAACTTATAACATGCTAAAG
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gtcagcgagttctggtattaagatgtcacatatttagtttaagttttttcatatgcatttgaaatcatccatggaataattgtttgctacaagggcatcaagtagaaatgttctgttcttgtattagttgataaccaatatagtctagcttaactccttttcttcaatttt-tgcataggagtgatccaa-gAGAATGGCAGATACCTTAAAAACGACAGAGAATGAAGAATCATGCACAACTTATAATATGTTGAAG
upper sequence: Vv06s0004g01770.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA12G05980.1 (Glycine max), 3'ss of exon 6
gtattaatact---aatctgtaatttga-----ttgggtagtaaataaaaataat--gtgaaaaattat----cgcgtgtttgtctaagtaattgttggttttccttcacactcttatg----atcctgcattgtttt---gatcattctgattgatcttacgagtagGTCAGATCCAAAGAGGTTGGCAAGCACACTTCAGCG----GGAGAATGAAGAATCATGCACAACTTATAACATGCTAAAG
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gtattaacatgttgcatttttagttttagtcttttcacttgcatttgaaattatccgttgaataattgtttgccacaagggcatcaaataaaaatgttctgcccctttattagttgataaccaattctagatttctttcttaactcttttacttcaattttttattagGAGTGATCCAAAGAGAATAGCAGACA-ACTTAAGAACGACAGAGAATGAAGAATCATGCACAACTTATAATATGTTGAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcacactcttatgatcctgcattgttttgatcattctgattgatcttacgagtagGTCAGATCCAAAGAGGTTGGCAAGCACACTTCAGCGGGAGAATGAAGAATCATGCACAACTTATAACATGCTAAAG
atcttac putative branch site (score: 3)
attgtttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtattaatactaatctgtaatttgattgggtagtaaataaaaataatgtgaaaaattatcgcgtgtttgtctaagtaattgttggttttccttcacactcttatgatcctgcattgttttgatcattctgattgatcttacgagtagGTCAGATCCAAAGAGGTTGGCAAGCACACTTCAGCGGGAGAATGAAGAATCATGCACAACTTATAACATGCTAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA