Sequence
atgc intronic sequence ATGC exonic sequencegtaatttctttgtcaaaattttcatggaattatttactgcatagatgaagggttcttgtcagtgtaatgctgttatttaagtttcatgttcaatttaatggtgcatatttgggggcattgtgtcatattttgtcgttatcattttctgatccttttatagtgtcatgcattttagAGCAATGTTGTTGCCTCTGGTGGCCTTGGTGGGGAGGTTTTTGTATGGGATCTGGAAGCTGCACTAACTCCAGTCTCAAAGTCAAGTGATGCAATGGAGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0030g01350.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os12g06810.2 (Oryza sativa), 3'ss of exon 5
gtaatttctttgtcaaaattttcatggaattatttactgcatagatgaagggttcttgtcagtgtaatgctgttatttaagtttcatgttcaatttaatggtgcatatttgggggcattgtgtcatattttgtcgttatcattttctgatccttttatagtgtcatgcattttagAGCAATGTTGTTGCCTCTGGTGGCCTTGGTGGGGAGGTTTTTGTATGGGATCTGGAAGCTGCACTAACTCCAGTCTCAAAGTCAAGTGATGCAATGGAGG
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--------------------------------------------------------------------------------gtatattatccagc---actatgcttttctgtgga-acta---ctcattttatcccttttgttttacatgtttttttttattctctgcaatgtagAGCAATATTGTTGCCTCTGGTGGCCTTGGCGGTGAGGTCTTTATATGGGACCTTGATTCTTCTCTTGCTCCTGTGGCCAAATCTGTAGATGCAAAAGAGG
upper sequence: Vv14s0030g01350.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G167999_T01 (Zea mays), 3'ss of exon 5
gtaatttctttgtcaaaattttcatggaattatttactgcatagatgaagggttcttgtcagtgtaatgctgttatttaagtttcatgttcaatttaatggtgcatatttgggggcat-tgtgtcatattttgtcgttatcattttctgatccttttatagtgtcatgcattttagAGCAATGTTGTTGCCTCTGGTGGCCTTGGTGGGGAGGTTTTTGTATGGGATCTGGAAGCTGCACTAACTCCAGTCTCAAAGTCAAGTGATGCAATGGAGG
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--------------------------------------------------------------------------------------------gtaatattatccacacttgtgcttttctgtggtatttttagccttt-tcattttttacagtttttttgcctt--tgaattgtagAGCAATATTGTAGCCTCTGGTGGTCTTGGTGGTGAGGTTTTCATTTGGGACCTTGATGCTGCTCTTGCTCCTGTAGCCAAATCTGTGGATGCAAAAGAGG
upper sequence: Vv14s0030g01350.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA03G40360.1 (Glycine max), 3'ss of exon 5
gtaatttctttgtcaaaattttcatggaa-ttatttactgcatagatgaagggttcttgtcagtgtaatgctgttatttaagtttcatgttcaatttaatggtgcatatttgggggcattgt-gtcatattttgtcgttatcattttctgatccttttatagtgtcatgcattttagAGCAATGTTGTTGCCTCTGGTGGCCTTGGTGGGGAGGTTTTTGTATGGGATCTGGAAGCTGCACTAACTCCAGTCTCAAAGTCAAGTGATGCAATGGAGG
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gtaatgtactt--caatcatcttatgcttcttattaagtgcatcaagaaaaagttcattttattgt-------ttttatacgttccacattgagtcagatag-atac-tttggttgaattatcagtatcaactgtcaaatccattatttgatcgtttaatagtgtcatgcattttagAGCAATATTGTTGCCTCTGGTGGCCTTGGCGGGGAGGTTTTTATATGGGATATCGAGGCTGCCCTCACTCCAGTCTCTAAGTGCAATGATGCTACAGTTG
upper sequence: Vv14s0030g01350.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA19G42990.1 (Glycine max), 3'ss of exon 5
gtaatttctttgtcaaaattttcatggaattatttactgcatagatgaagggttcttgtcagtgtaatgctgttatttaagtttcatgttcaatttaatggtgcatatttgggggcattgtgtcatattttgtcgttatcattttctgatccttttatagtgtcatgcattttagAGCAATGTTGTTGCCTCTGGTGGCCTTGGTGGGGAGGTTTTTGTATGGGATCTGGAAGCTGCACTAACTCCAGTCTCAAAGTCAAGTGATGCAATGGAGG
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gtaatgtactt--caaacatcttatg---cttcttattaagtgtgtcaagaaaaaagttcattttattgtttttat--acgttccacattgagtcagataga--aactttggttgaattat--ca-gtatcgtcaaatccattatttgatcgtttaatagtgtcatgcattttagAGCAATATTGTTGCCTCTGGTGGCCTTGGCGGGGAGGTTTTTATATGGGATATCGAGGCTGCCATCACTCCGGTTTCTAAGTGCAATGATGCTACAATTG
upper sequence: Vv14s0030g01350.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA03G40440.4 (Glycine max), 3'ss of exon 5
-----gtaatttctttgtcaaaattttcatggaa-ttatttactgcatagatgaagggttcttgtcagtgtaatgctgttatttaagtttcatgttcaatttaatggtgcatatttgggggcattgtgtcatattttgtcgttatcattttctgatccttttatagtgtcatgcattttagAGCAATGTTGTTGCCTCTGGTGGCCTTGGTGGGGAGGTTTTTGTATGGGATCTGGAAGCTGCACTAACTCCAGTCTCAAAGTCAAGTGATGCAATGGAGG
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gtaatgtacttcaaagttcaaacatgttatgcttcttattatgtgccttaagaaaaagttcattttattgt-------ttctatatgctccacattaaacagatagctac---tttggttgaattat------caatgtcaaatccattctttgatcctttaatagtgtcttgctttttagAACAATATTGTTGCCTCTGGTGGCCTTGGTGGGGAGGTTTTTATATGGGATATCGAGGCTGCCCTCGCTCCAGTCTCTAAGTGTAATGATGATACAGTTG
upper sequence: Vv14s0030g01350.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA10G30050.1 (Glycine max), 3'ss of exon 4
gtaatttctttgtcaaaattttcatggaa-ttatttactgcatag-atgaagggttcttgtcagtgtaatgctgttatttaagtttcatgttcaa-tttaatggtgcatatttgggggcattgtgtcatattttgtcgttatcattttctgatccttttatagtgtcatgcattttagAGCAATGTTGTTGCCTCTGGTGGCCTTGGTGGGGAGGTTTTTGTATGGGATCTGGAAGCTGCACTAACTCCAGTCTCAAAGTCAAGTGATGCAATGGAGG
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gtaatgtgtactatgaacttttcatgcttcttatgaatcgcacaccaagaaaagtttttttt-------tcttcttgttt---ttatgtgctcaaatatgacatagtttgattgaatttaaagtttga-atcttatcaaatccattttctgattctttagaagtgtcgtgaattttagAGCAATGTGGTTGCCTCTGGTGGCCTTGGCGGGGAGATTTTTATATGGGATATTGAAGCTGCACTAGCTTCAGCTACAAAATGCAATGATCCAATGGATG
upper sequence: Vv14s0030g01350.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA19G43070.1 (Glycine max), 3'ss of exon 5
gtaatttctttgtcaaaattttcatggaa-ttatttactgcatagatgaagggttcttgtcagtgtaatgctgttatttaagtttcatgttcaatttaatggtgcatatttgggggcattgtgtcatattttgtcgttatcattttctgatccttttatagtgtcatgcattttagAGCAATGTTGTTGCCTCTGGTGGCCTTGGTGGGGAGGTTTTTGTATGGGATCTGGAAGCTGCACTAACTCCAGTCTCAAAGTCAAGTGATGCAATGGAGG---
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gtaatgtactc--caaacatcttatgcttcttattaagtgtatcgagaaaaagttcattttattgt-------ttctatatgctccacattgaaacagatagc---tactttgg----ttgaattatcaatt-tcaaatccattctttgatcctttaatagtgtcttgctttttagAACAATACTGTTGCCTCTGGTGGCCTTGGTGGGGAGGTTTTTATATGGGATATCGAGGCTGCCCTTGCTCC---CTCTAAGTGTAATGATGCTATGGTTGATG
upper sequence: Vv14s0030g01350.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT3G05090.1 (Arabidopsis thaliana), 3'ss of exon 5
gtaatttctttgtcaaaattttcatggaattatttactgcatagatgaagggttcttgtcagtgtaatgctgttatttaagtttcatgttcaatttaatggtgcatatttgggggcattgtgtcatattttgtcgttatcattttctgatccttttatagtgtcatgcattttagAGCAATGTTGTTGCCTCTGGTGGCCTTGGTGGGGAGGTTTTTGTATGGGATCTGGAAGCTGCACTAACTCCAGTCTCAAAGTCAAGTGATGC-AATGGAGG
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--------------------------------gtaatttctcatttgtcatgcttttttctttatagttcc--cactgaaaaaaattgattggtatggtggtgcaagttttgaggatatatgtg----cttctcattgtcgcattctgattctatcttgatttcacaacttttagAATAATGTTGTTGCATCTGGTGGCCTTGGTGGGGAGGTTTTTATATGGGATATTGAAGCTGCTTTGTCACCAGTTACCAAACCTAATGACGCTAATGAAG- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtcatattttgtcgttatcattttctgatccttttatagtgtcatgcattttagAGCAATGTTGTTGCCTCTGGTGGCCTTGGTGGGGAGGTTTTTGTATGGGATCTGGAAGCTGCACTAACTCCAGTCTCAAAGTCAAGTGATGCAATGGAGG
ttctgat putative branch site (score: 3)
ttatcatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatttctttgtcaaaattttcatggaattatttactgcatagatgaagggttcttgtcagtgtaatgctgttatttaagtttcatgttcaatttaatggtgcatatttgggggcattgtgtcatattttgtcgttatcattttctgatccttttatagtgtcatgcattttagAGCAATGTTGTTGCCTCTGGTGGCCTTGGTGGGGAGGTTTTTGTATGGGATCTGGAAGCTGCACTAACTCCAGTCTCAAAGTCAAGTGATGCAATGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG