Sequence
atgc intronic sequence ATGC exonic sequencegttaatttcttttccttgttaggtttttaatgatagtctatgattttagcatcaaaacagaagcaattaggttttggaaaaatcagttttgttgataaaaaaggtccgggctgaagattattgtatgagattgcatttacatcctcgcattgattgggctgttaacttagtgtgttatgagacagATTCTTGAAGGCCAGGAAATTTGATATTGAAAAAACAAAGCAAATGTGGGCTGATATGATCAATTGGAGGAAGGAGTTTGGCGCTGACACAATCATGGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv03s0038g04480.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA11G12270.1 (Glycine max), 3'ss of exon 1
gttaatttcttttccttgttaggtttttaatgatagtctatgattttagcatcaaaacagaagcaattaggttttggaaaaatcagttttgttgataaaaaaggtccgggctgaagattattgtatga--gattgcatttacatcctcgcattgattgggctgttaacttagtgtgttatgagacagATTCTTGAAGGCCAGGAAATTTGATATTGAAAAAACAAAGCAAATGTGGGCTGATATGATCAATTGGAGGAAGGAGTTTGGCGCTGACACAATCATGGAG
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-------------------------------------------------------------------------------------gtagccctaggacaaaatttcttgtccattcatttattaattactaatagctgtcgcatgagtggtatcatt----taatgccttaccgcgtgatgatccagATTCTTGAGAGCAAGGAAATTTGACATTGAAAAAACAAAACAAATGTGGGCAGATATGCTTCAGTGGAGGAGGGAGTTTGGTGCTGACACCATCATGGAG
upper sequence: Vv03s0038g04480.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA06G01270.1 (Glycine max), 3'ss of exon 2
gttaatttcttttccttgttaggtttttaatgatagtctatgattttagcatcaaaacagaagcaattaggttttggaaaaatcagttttgttgataaaaaaggtccgggctgaagattattgtatgagattgcatttacatcctcgcattgattgggctgttaacttagtgtgttatgagacagATTCTTGAAGGCCAGGAAATTTGATATTGAAAAAACAAAGCAAATGTGGGCTGATATGATCAATTGGAGGAAGGAGTTTGGCGCTGACACAATCATGGAG
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---------------------------------------------gtagccttgtgacatag-----tttcttcttcagtgatttatttatttactagctgtagtatgattaacttaactttgtttaatgccttagtttcacagttctgatactttccctataatttaattgtatgatgatccagATTCTTGAGAGCAAGGAAGTTTGACATTGAGAAAACAAAACAAATGTGGACAGATATGCTCAAGTGGAGGCAGGAATTTGGTGCTGACACTATCATGGAG
upper sequence: Vv03s0038g04480.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA04G01230.1 (Glycine max), 3'ss of exon 1
gttaatttcttttccttgttaggtttttaatgatagtctatgattttagcatcaaaacagaagcaattaggttttggaaaaatcagttttgttgataaaaaaggtccgggctgaagattattgtatgagattgcatttacatcctcgcattgattgggctgttaacttagtgtgttatgagacagATTCTTGAAGGCCAGGAAATTTGATATTGAAAAAACAAAGCAAATGTGGGCTGATATGATCAATTGGAGGAAGGAGTTTGGCGCTGACACAATCATGGAG
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---------------------------------------------gtagccttgtgacatag-----ttgcttcttcagtgatttatttatttaccagctgtagcatgagtagcttaactttgcttaatgccttaatttcacagttctaataatttctctataatttaattgtctgatgatccagATTCTTGAGAGCAAGGAAGTTTGACATTGAGAAAACAAAACAAATGTGGGCAGATATGCTTAAGTGGAGGCAAGAATTTGGTGCTGACACTATCATGGAG
upper sequence: Vv03s0038g04480.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT2G18180.1 (Arabidopsis thaliana), 3'ss of exon 2
gttaatttcttttccttgttaggtttttaatgatagtctatgattttagcatcaaaacagaagcaattaggttttggaaaaatcagttttgttgataaaaaaggtccgggctgaagattattgtatgagattgcatttacatcctcgcattgattgggctgttaacttagtgtgttatgagacagATTCTTGAAGGCCAGGAAATTTGATATTGAAAAAACAAAGCAAATGTGGGCTGATATGATCAATTGGAGGAAGGAGTTTGGCGCTGACACAATCATGGAG
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-------------------------------------------------------------------------------------------------------gtctatcttggaatatatcatgccaatgtgcatctatgtccat-tattagcttgaatgtttcttcattttt--------cagGTTTTTGAAGGCTAGAAAATTTGATCTTGAGAAAACAAATCAAATGTGGTCTGACATGCTCCGATGGAGGAAGGAGTTTGGTGCTGACACAGTTATGGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgcatttacatcctcgcattgattgggctgttaacttagtgtgttatgagacagATTCTTGAAGGCCAGGAAATTTGATATTGAAAAAACAAAGCAAATGTGGGCTGATATGATCAATTGGAGGAAGGAGTTTGGCGCTGACACAATCATGGAG
tgttaac putative branch site (score: 2)
ttaactta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttaatttcttttccttgttaggtttttaatgatagtctatgattttagcatcaaaacagaagcaattaggttttggaaaaatcagttttgttgataaaaaaggtccgggctgaagattattgtatgagattgcatttacatcctcgcattgattgggctgttaacttagtgtgttatgagacagATTCTTGAAGGCCAGGAAATTTGATATTGAAAAAACAAAGCAAATGTGGGCTGATATGATCAATTGGAGGAAGGAGTTTGGCGCTGACACAATCATGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA