Sequence
atgc intronic sequence ATGC exonic sequencegtttgttcagtccattaactaagaatatatcctgcaaccatattgttacacactccacttcaaaccaccacaagatttcattcaattatagagcataactcagtacccttattttcagGTGATGCAGTTGTCAATGTGTACATTAATCATGAAAAGAAGTTTGCATTCGTGGAGATGAGAAGTGTTGAAGAAGCAAGTAATGCAATGGCATTGGATGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0561g00030.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: PP1S79_75V6.1 (Physcomitrella patens), 3'ss of exon 8
----------------------------------------------------------gtttgttcagtccattaactaagaatatatcctgcaaccatattgttacacactccacttcaaaccaccacaagatttcattcaattatagagcataactcagtacccttatttt----cagGTGATGCAGTTGTCAATGTGTACATTAATCATGAAAAGAAGTTTGCATTCGTGGAGATGAGAAGTGTTGAAGAAGCAAGTAATGCAATGGCATTGGATGG
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gtagatggctactgcagttcagaaatgttgtcttgattctttttcgtgtttcttaattgggtgtgacgctgattttcgattagaatctagttcaa--atagtgctccagattttatcaggtagt-tcttgtatttttgtgtactaatgtgatgtatcctgtttatcatggtttggcctagGTGATGCTGTTGTGAACGTATATATCAACCAAGAAAAGAAGTTCGCATTTGTTGAGATGCGAACTGTTGAAGAAGCCAGCAATGCCATGGCCTTAGATGG
upper sequence: Vv00s0561g00030.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: PP1S58_254V6.1 (Physcomitrella patens), 3'ss of exon 9
---------------------------------------gtttgttcagtccattaactaag--aatatatcctgcaacca---tattgttacacactccacttcaaaccaccacaag-atttcatt------caattatagagcataactcagtacccttattttcagGTGATGCAGTTGTCAATGTGTACATTAATCATGAAAAGAAGTTTGCATTCGTGGAGATGAGAAGTGTTGAAGAAGCAAGTAATGCAATGGCATTGGATGG
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gtacatagcttgtacagtacttgtttcgttgttcgattgacctttataattctcgaattggtttaacactggttgtcagcagggtattagtcaaaatggggccccagatcacgtcaatcattccgctgttgcgtgctaatgtgccgatggtcattatggtttggcttagGTGATGCCGTTGTGAACGTGTACATCAACCAAGAAAAGAAATTTGCATTCGTTGAGATGCGAACCGTTGAGGAAGCCAGCAATGCTATGGCTTTAGATGG
upper sequence: Vv00s0561g00030.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: PP1S88_42V6.1 (Physcomitrella patens), 3'ss of exon 9
gtttgttcagtccattaactaagaatatatcctgcaaccatattgttacacactccacttcaaaccaccacaagatttcattcaattatagagcataactcagtacccttattttcagGTGATGCAGTTGTCAATGTGTACATTAATCATGAAAAGAAGTTTGCATTCGTGGAGATGAGAAGTGTTGAAGAAGCAAGTAATGCAATGGCATTGGATGG
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---tgttttttttatacatgaccattactacgtataagtagggtct-----gttcaatgccaagttt---taatgcttgattttctgatgaa-------tttatgttttaaccaccagGTGATGCTGTTGTTAACGTGTATATTAATCAAGAAAAGAAGTTTGCCTTCGTTGAAATGCGTACTGTCGAAGAAGCCAGTAATGCTATGGCCTTGGATGG
upper sequence: Vv00s0561g00030.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: PP1S98_130V6.1 (Physcomitrella patens), 3'ss of exon 9
------------------------------------------------------------gtttgttcagtccattaactaagaatatatcctgcaaccatattgttacacactccacttcaaa--ccaccacaagatttcattcaattatagagcataactcagt-acccttattttcagGTGATGCAGTTGTCAATGTGTACATTAATCATGAAAAGAAGTTTGCATTCGTGGAGATGAGAAGTGTTGAAGAAGCAAGTAATGCAATGGCATTGGATGG
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gtatacgaggaagctaactagttcatgatagcattagctaatttgcattattgatatgctattttataaattcgtaacacatgactgcactgtatagtga-agtcttgattactggaggaagaaatctataattacgctgtataaaacattttcgtcttactcattcaccactttccgcagGTGATGCTGTTGTGAATGTGTACATCAATCAGGAAAAACGATTTGCTTTTGTAGAGATGCGAACTGTTGAAGAAGCTAGTAATGCCATGGCTTTAGATGG
upper sequence: Vv00s0561g00030.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: EFJ07178 (Selaginella moellendorffii), 3'ss of exon 5
gtttgttcagtccattaactaagaatatatcctgcaaccatattgttacacactccacttcaaaccaccacaagatttcattcaattatagagcataactcagtacccttattttcagGTGATGCAGTTGTCAATGTGTACATTAATCATGAAAAGAAGTTTGCATTCGTGGAGATGAGAAGTGTTGAAGAAGCAAGTAATGCAATGGCATTGGATGG
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----------------------------------------------------------------gtatcagaattctgtctttgtgggcacattgtgatgtggaagttttggatgcagGTGACGCTGTTGTGAATGTGTACATTAACCAAGAGAAGAAATTTGCTTTTGTCGAAATGCGAACTGTTGAAGAAGCCAGCAATGCAATGGCTTTAGATGG
upper sequence: Vv00s0561g00030.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: EFJ09184 (Selaginella moellendorffii), 3'ss of exon 5
gtttgttcagtccattaactaagaatatatcctgcaaccatattgttacacactccacttcaaaccaccacaagatttcattcaattatagagcataactcagtacccttattttcagGTGATGCAGTTGTCAATGTGTACATTAATCATGAAAAGAAGTTTGCATTCGTGGAGATGAGAAGTGTTGAAGAAGCAAGTAATGCAATGGCATTGGATGG
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----------------------------------------------------------------gtatcagaattctgtctttgcgggcacattgtgatgtggaagttttggatgcagGTGACGCTGTTGTGAATGTGTACATTAACCAAGAGAAGAAATTTGCTTTTGTCGAAATGCGAACTGTTGAAGAAGCCAGCAATGCAATGGCTTTAGATGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.accaccacaagatttcattcaattatagagcataactcagtacccttattttcagGTGATGCAGTTGTCAATGTGTACATTAATCATGAAAAGAAGTTTGCATTCGTGGAGATGAGAAGTGTTGAAGAAGCAAGTAATGCAATGGCATTGGATGG
gcataac putative branch site (score: 3)
cccttattttc putative PPT
atttcattcaattata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgttcagtccattaactaagaatatatcctgcaaccatattgttacacactccacttcaaaccaccacaagatttcattcaattatagagcataactcagtacccttattttcagGTGATGCAGTTGTCAATGTGTACATTAATCATGAAAAGAAGTTTGCATTCGTGGAGATGAGAAGTGTTGAAGAAGCAAGTAATGCAATGGCATTGGATGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG