Sequence
atgc intronic sequence ATGC exonic sequencegtggtgattttttcttttttctttttatctatttatattttgtactctcctgtgaattttcactctgtgctatgtctgcaacttgacaatggaaaatgtaggtttttctcatgatgtctttatggatcttaggcatctcagtttttaggtttatatggctgttgcagagtaggttctaacaacttctatatgcagGCATCTGATCAGATTGCAACGGCATATGCAGAGCTCAGAAATTCCAATTCTAATGCAAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv10s0003g03080.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: LOC_Os05g39850.1 (Oryza sativa), 3'ss of exon 10
gtggtgattttttcttttttctttttatctatttatattttgtactctcctgtgaattttcactctgtgctatgtctgcaacttgacaatggaaaatgtaggtttttctcatgatgtctttatggatcttaggcatctcagtttttaggtttatatggctgttgcagagtaggttctaacaacttctata----tgcagGCATCTGATCAGATTGCAACGGCATATGCAGAGCTCAGAAATTCCAATTCTAATGCAAAG
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---------------------------------------------------gtgattttcttaaatgagatattattcttgtttatcatcgctatgtatgaagtgttatgttgataactttcttcatagtaaaag----aaaatttctgttgata--gcttcttcaga-tatatcatttaagcttttgtgctcctacagGCATCTGATCATATTGCAACTTCATATGCTGAGCTCAGGGATGGTGGTGCAAATGCAAAG
upper sequence: Vv10s0003g03080.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GRMZM2G100639_T01 (Zea mays), 3'ss of exon 10
gtggtgattttttcttttttctttttatctatttatattttgtactctcctgtgaattttcactctgtgctatgtctgcaacttgacaatggaaaatgtaggtttttctcatgatgtctttatggatcttaggcatctcagtttttaggtttatatggctgttgcagagtaggttctaacaacttctatatgcagGCATCTGATCAGATTGCAACGGCATATGCAGAGCTCAGAAATTCCAATTCTAATGCAAAG
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--------------------------------------------------------------------------------------------tatttcaatgtttcttgattgttttctcaattgttcaagagaatcttacataata--taaaggtctcccttcagatatagcattgaaattcttctgc-tgcagGCATCTGATCATATTGCAACCTCATATGCTGAGCTCAGGGATGGTAGTGCAAATGCAAAG
upper sequence: Vv10s0003g03080.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA08G08920.1 (Glycine max), 3'ss of exon 10
gtggtgattttttcttttttctttttatctatttatattttgtactctcctgtgaattttcactctgtgctatgtctgcaacttgacaatggaaaatgtaggtttttctcatgatgtctttatggatcttaggca-tctcagtttttaggtttatatggctgttgcagagtaggttctaacaacttctatatgcagGCATCTGATCAGATTGCAACGGCATATGCAGAGCTCAGAAATTCCAATTCTAATGCAAAG
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--------------------------------------------------------------------------------------------gaagtctgattgttttcaatg--gttgttatgcttctggtccaatcccattatatagac--acgtgactaacttgaatttaacatcaattgactatgtccacagGCATCTGAGAACATTGCCACGGCCTATGCTGAGCTCAGAAATTCAAGTTCAAATGCAAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtttttaggtttatatggctgttgcagagtaggttctaacaacttctatatgcagGCATCTGATCAGATTGCAACGGCATATGCAGAGCTCAGAAATTCCAATTCTAATGCAAAG
ttctaac putative branch site (score: 1)
cttctat putative PPT
tttatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtggtgattttttcttttttctttttatctatttatattttgtactctcctgtgaattttcactctgtgctatgtctgcaacttgacaatggaaaatgtaggtttttctcatgatgtctttatggatcttaggcatctcagtttttaggtttatatggctgttgcagagtaggttctaacaacttctatatgcagGCATCTGATCAGATTGCAACGGCATATGCAGAGCTCAGAAATTCCAATTCTAATGCAAAG
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- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG