Sequence
atgc intronic sequence ATGC exonic sequence...atttatccttatactagttgtatttgatctttaatttgtgttgttatgttccacacatcattctgaatgaataaaattttattttaactcccttcaacagGTTCGTGCATATGCTGTCAGTGTTCTTGAAAGAGCTGATGATGAAGAGCTTCAATGTTACTTACTTCAACTGGTTCAGGCTCTTCGTTTCGAGCGCTCTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0127g00430.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G103721_T01 (Zea mays), 3'ss of exon 8
--------atttatccttatactagttgtatttgatctttaatttgtgttgttatgttccacacatcattctgaatgaataaaattttattttaactcccttcaacagGTTCGTGCATATGCTGTCAGTGTTCTTGAAAGAGCTGATGATGAAGAGCTTCAATGTTACTTACTTCAACTGGTTCAGGCTCTTCGTTTCGAGCGCTCTG
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caattctaaaatagtattcgatatttagattctgactctggctatatgctttattatctcatgaattattctgtaaggtaacaattgttttt-------ctgcaa-agGTTCGTGGTTATGCTGTCAGCGTACTTGAAAGGGCTGATGATGAAGAATTACAGTGCTATTTACTCCAGTTAGTGCAAGCTCTTCGGTTTGAAAGATCTG
upper sequence: Vv01s0127g00430.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA06G10090.1 (Glycine max), 3'ss of exon 8
atttatccttatactagttgtatttgatctttaatttgtgttgttatgttccaca-catcattctgaatgaat---aaaattttattttaactccctt-caacagGTTCGTGCATATGCTGTCAGTGTTCTTGAAAGAGCTGATGATGAAGAGCTTCAATGTTACTTACTTCAACTGGTTCAGGCTCTTCGTTTCGAGCGCTCTG
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-----ccattgcacatgtatcacttaatattgcaattattatttttcactcaatagtagaaatttatacatctttcaaggccgtttctcaactgctttattccagGTCCGTGCTTATGCAGTTAGTGTTCTTGAAAGAGCTGATGATGAAGAGCTTCAGTGTTATTTGCTTCAATTGGTTCAGGCTCTTCGGTTTGAGCGTTCTG
upper sequence: Vv01s0127g00430.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA04G10090.1 (Glycine max), 3'ss of exon 8
atttatccttatactagttgtatttgatctttaatttgtgttgttatgttccacacatcatt-ctgaatgaataaaattttattttaactccctt-caacagGTTCGTGCATATGCTGTCAGTGTTCTTGAAAGAGCTGATGATGAAGAGCTTCAATGTTACTTACTTCAACTGGTTCAGGCTCTTCGTTTCGAGCGCTCTG
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-cttaatatctcaattattttttttactcaataggagaaatttatacac-ctatagagaactatttactatacgaggccgtttctcaactgcttcattccagGTCCGTGCTTATGCAGTTAGTGTTCTTGAAAGAGCTGATGATGAAGAACTTCAGTGTTATTTGCTTCAATTGGTTCAAGCTCTTCGGTTTGAGCGTTCTG
upper sequence: Vv01s0127g00430.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT1G60490.1 (Arabidopsis thaliana), 3'ss of exon 8
----------------attta---tccttatactagttgtatttgatctttaatttgtgttgttatgttccacacatcattctgaatgaataaaattttattttaactcccttcaacagGTTCGTGCATATGCTGTCAGTGTTCTTGAAAGAGCTGATGATGAAGAGCTTCAATGTTACTTACTTCAACTGGTTCAGGCTCTTCGTTTCGAGCGCTCTG
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gtactacgagtgtccaatttacttttcttctgctcttctaattcgccactcgatctgcttggctgtcatcttggtata--tttaaatgtaggctcattcttcactacacttactgatagGTTCGAGCTTATGCTGTGAGTGTCCTGGAAAGAGCTGATGATGAAGAGCTTCAGTGTTACTTGCTTCAACTGGTTCAGGCTCTTCGTTTTGAACGCTCTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgttccacacatcattctgaatgaataaaattttattttaactcccttcaacagGTTCGTGCATATGCTGTCAGTGTTCTTGAAAGAGCTGATGATGAAGAGCTTCAATGTTACTTACTTCAACTGGTTCAGGCTCTTCGTTTCGAGCGCTCTG
ttttaac putative branch site (score: 2)
ttttaactcccttc CT-rich tract
atcattctgaatgaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atttatccttatactagttgtatttgatctttaatttgtgttgttatgttccacacatcattctgaatgaataaaattttattttaactcccttcaacagGTTCGTGCATATGCTGTCAGTGTTCTTGAAAGAGCTGATGATGAAGAGCTTCAATGTTACTTACTTCAACTGGTTCAGGCTCTTCGTTTCGAGCGCTCTG
- - - - - - - - - - - - - - - - - - - - - - - - - ccacaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctgaatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aataaaa