Sequence
atgc intronic sequence ATGC exonic sequence...aggtgctaataattgattaaattatttgtgaaattgtttttgtagttatgctgcaaatgcagttaatgccttttctgacaacaatttataaatttcacagAGAGTAGTGAAGGAAAAAAATGCTCTTGCTGAAAGGTTGAAGAGTGCTGAAGCTGCAAGGAAAAGGTTTGATGAAGAACTAAAACGTTATGCAACAGAGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0008g05690.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G041842_T01 (Zea mays), 3'ss of exon 5
-----aggtgctaataattgattaaattatttgtgaaattgtttttgtagttatgctgcaaatgcagttaatgccttttctgacaacaatttataaatttcacagAGAGTAGTGAAGGAAAAAAATGCTCTTGCTGAAAGGTTGAAGAGTGCTGAAGCTGCAAGGAAAAGGTTTGATGAAGAACTAAAACGTTATGCAACAGAGA
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tggacaggagggagtagata--tcagttatcatgaccaccatgataccaatcatatttgctatacattttaaacaa---ctaaacttaggtgctatgtgctgcagAAAGTGACAAAGGAGAAAAATACATTAGCAGAACAGCTGAAGAATGCTGAAGCTTCAAGGAAAAGGTTTGATGATGAATTAAAACGTTATGCAGCTGAAA
upper sequence: Vv04s0008g05690.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA06G07050.1 (Glycine max), 3'ss of exon 8
--aggtgctaataattgatt-aaattatttgtgaaattgtttttgtagttatgctgcaaatgcagttaatgccttttctgacaacaatttataaatttcacagAGAGTAGTGAAGGAAAAAAATGCTCTTGCTGAAAGGTTGAAGAGTGCTGAAGCTGCAAGGAAAAGGTTTGATGAAGAACTAAAACGTTATGCAACAGAGA
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atgagaacagaaagttttttcaaattaaatgacccatagtttaccattttgtg-tacaatgggatctaattgaagat-taatgtcaatcttgttacat-acagAAAGTAGTCAAGGAGAAAAATGCTCTTGCTGAAAGATTGAAGAATGCTGAAGCTGCACGCAAGAGATTTGATGAAGAACTGAAAAGATTTGCAACAGAGA
upper sequence: Vv04s0008g05690.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA04G06960.1 (Glycine max), 3'ss of exon 9
-----aggtgctaataattgattaaattatttgtgaaattgtttttgtagttatgctgcaaatgcagttaatgccttttctgacaacaatttataaatttcacagAGAGTAGTGAAGGAAAAAAATGCTCTTGCTGAAAGGTTGAAGAGTGCTGAAGCTGCAAGGAAAAGGTTTGATGAAGAACTAAAACGTTATGCAACAGAGA
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atgagaacagaaaaagcttgtttaaattaaatgacccttagctttcc--attgtg-tataatgggatctaattgaaaat-taatgtcaatcttgttacat-acagAAAGTAGTCAAGGAGAAAAATGCTCTTGCTGAAAGATTGAAGAATGCTGAAGCTGCACGCAAGAGATTTGACGAAGAACTGAAAAGATTTGCAACAGAGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttatgctgcaaatgcagttaatgccttttctgacaacaatttataaatttcacagAGAGTAGTGAAGGAAAAAAATGCTCTTGCTGAAAGGTTGAAGAGTGCTGAAGCTGCAAGGAAAAGGTTTGATGAAGAACTAAAACGTTATGCAACAGAGA
ttctgac putative branch site (score: 2)
acaacaatttataaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aggtgctaataattgattaaattatttgtgaaattgtttttgtagttatgctgcaaatgcagttaatgccttttctgacaacaatttataaatttcacagAGAGTAGTGAAGGAAAAAAATGCTCTTGCTGAAAGGTTGAAGAGTGCTGAAGCTGCAAGGAAAAGGTTTGATGAAGAACTAAAACGTTATGCAACAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - tatgctg
- - - - - - - - - - - - - - - - - - - - - - - - - - -caaatgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -acaacaa