Sequence
atgc intronic sequence ATGC exonic sequencegtatctttctatacatatatagtttcttttatatacaaattgcaatttagatattaacaaggagctttctcatcagtgtacttaattataaaagaaaaaactggttagggcacaatgactaatgcctttgtcgttgcagATCAGTAACTATGAGAGGGAACTGGAGGAGATGAAGCACATGACCAGACAAGAATTTGTGGCCTCCATTAGAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0004g01800.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA12G06010.1 (Glycine max), 3'ss of exon 5
gtatctttctatacatatatagtttcttttatatacaaattgcaatttagatattaacaaggagctttctcatcagtgtacttaattataaaag--aaaaaactggtt-agggcacaatgac--taatgcc-tttgtcgttgcagATCAGTAACTATGAGAGGGAACTGGAGGAGATGAAGCACATGACCAGACAAGAATTTGTGGCCTCCATTAGAAG
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------------------------------------------------------------gtatgttttttatgactctactttttcaatgcttctcagacactggttcaaaggaaagttatattgatttcattttattttacagATTAGCAACTATGAGAAGGAATTGGATGAAATGAAACACATGACGAGACAAGAATTTGTTGCCGCCATTAGAAG
upper sequence: Vv06s0004g01800.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA11G14040.2 (Glycine max), 3'ss of exon 6
gtatctttctatacatatatagtttcttttatatacaaattgcaatttagatattaacaaggagctttctcatcagtgtacttaatta--taaaagaaaaaactggtt--agggcacaatgactaatgcc-tttgtcgttgcagATCAGTAACTATGAGAGGGAACTGGAGGAGATGAAGCACATGACCAGACAAGAATTTGTGGCCTCCATTAGAAG
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------------------------------------------------------------gtaagtttatgactgaagtttttcaatacttctcagacactactggttcaaaggaaagttcattgatttcattttgttttacagATTAGTAACTATGAGAAGGAATTGGATGAAATGAAACACATGACGCGACAAGAATTTGTTGCTGCCATTAGAAG
upper sequence: Vv06s0004g01800.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT3G20840.1 (Arabidopsis thaliana), 3'ss of exon 5
gtatctttctatacatatatagtttcttttatatacaaattgcaatttagatattaacaaggagctttctcatcagtgtacttaattataaaagaaaaaactggttagggcacaatgactaatgcctttgtcgttgcagATCAGTAACTATGAGAGGGAACTGGAGGAGATGAAGCACATGACCAGACAAGAATTTGTGGCCTCCATTAGAAG
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------------------------------------------------gtatgttaattcatatttttcttgcaaata-atgtcgtgatactagttttgtatgcttcaaat-ctttgattcatgactgtatat---cagATTACAAACTACGAGAAAGAAGTAGAGGAAATGAAGCACATGACGAGACAAGAGTTCGTGGCTGCCATTAGAAG
upper sequence: Vv06s0004g01800.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT1G51190.1 (Arabidopsis thaliana), 3'ss of exon 6
gtatctttctatacatatatagtttcttttatatacaaattgcaatttagatattaacaaggagctttctcatcagtgtacttaattataaaagaaaaaactggttagggcacaatgactaatgcctttgtcgttgcagATCAGTAACTATGAGAGGGAACTGGAGGAGATGAAGCACATGACCAGACAAGAATTTGTGGCCTCCATTAGAAG
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----------------------------------gtaagttat--ttcaaattttcatgaata-----tttgtaattgtaat-aattgttgataatatcgttagttcctccgtaatttttatttgattgcgtattttagATAACTAACTACGAGAAGGAAGTAGAGGAGATGAAAAACATGACGAGACAAGAGTTTGTGGCTTCTATAAGAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attataaaagaaaaaactggttagggcacaatgactaatgcctttgtcgttgcagATCAGTAACTATGAGAGGGAACTGGAGGAGATGAAGCACATGACCAGACAAGAATTTGTGGCCTCCATTAGAAG
gactaat putative branch site (score: 2)
cctttgtc CT-rich tract
aaaagaaaaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatctttctatacatatatagtttcttttatatacaaattgcaatttagatattaacaaggagctttctcatcagtgtacttaattataaaagaaaaaactggttagggcacaatgactaatgcctttgtcgttgcagATCAGTAACTATGAGAGGGAACTGGAGGAGATGAAGCACATGACCAGACAAGAATTTGTGGCCTCCATTAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC