Sequence
atgc intronic sequence ATGC exonic sequence...gagtctaattcttttttttcattgattaggccaattcattggctttcatcagaaatctcaaaacaagtagtgatgctattttcctgatttctttcctcagGCATGAGCTTCTACTATTTGAAGCCCTTCGAGAAGGCCTGGAAGAAGAAATGGACAGAGATCCCCTAGTATGCGTAATGGGTGAAGATGTGGGCCACTAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv10s0003g03770.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA05G27260.1 (Glycine max), 3'ss of exon 3
--gagtctaattcttttttttcattgattaggccaattcattggctttcatcagaaatctcaaaacaagtagtgatgctattttcc-----tgatttctttcctcagGCATGAGCTTCTACTATTTGAAGCCCTTCGAGAAGGCCTGGAAGAAGAAATGGACAGAGATCCCCTAGTATGCGTAATGGGTGAAGATGTGGGCCACTAT
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agttgctaaaatttttttttttgtttgcta-------ttggcagcactgattgtgtgagttatgaccaatgatgatggaaataaccatatatgcattttatttttagGCATGAACTTCTCCTTTTTGAGGCCCTACGTGAAGGTTTGGAAGAAGAAATGGAGAGGGATCCTTGTGTATGTGTCATGGGCGAAGATGTAGGTCACTAT
upper sequence: Vv10s0003g03770.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA08G10200.1 (Glycine max), 3'ss of exon 3
----gagtctaattcttttttttcattgattaggccaattcattggctttcatcagaaatctcaaaacaagtagtgatgctattttcctgatttctttcctcagGCATGAGCTTCTACTATTTGAAGCCCTTCGAGAAGGCCTGGAAGAAGAAATGGACAGAGATCCCCTAGTATGCGTAATGGGTGAAGATGTGGGCCACTAT
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acaagtgccaaattcaaagttgttaaaaaacattttt-tttgtttgctattaccttg---ttatgcactgattgtaactaactatatatgcattttatttttagGCATGAACTTCTCCTTTTTGAGGCCCTACGTGAAGGTTTGGAAGAAGAAATGGAGAGGGATCCTTGTGTATGTGTCATGGGCGAAGATGTAGGTCACTAT
upper sequence: Vv10s0003g03770.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT1G30120.1 (Arabidopsis thaliana), 3'ss of exon 3
----gagtctaattcttttttttcattgattaggccaattcattggctttcatcagaaatctcaaaacaagtagtgatgctattttcctgatttctttcctcagGCATGAGCTTCTACTATTTGAAGCCCTTCGAGAAGGCCTGGAAGAAGAAATGGACAGAGATCCCCTAGTATGCGTAATGGGTGAAGATGTGGGCCACTAT
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ctttaaacttccatgctcatattcaatataagtgtcatgatgatgccttttttttgtca----aaaatacaaagtgtgaccaatcttctcgtatgaatttacagACATGAACTATTGCTTTTCGAGGCTCTTCAGGAAGGTCTGGAAGAAGAGATGGACAGAGATCCACATGTATGTGTTATGGGTGAAGATGTTGGCCATTAC
upper sequence: Vv10s0003g03770.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT2G34590.1 (Arabidopsis thaliana), 3'ss of exon 3
gagtctaattcttttttttcattgattaggccaattcattggctttcatcagaaatctcaaaacaagtagtgatgctattttcctgatttctttcctcagGCATGAGCTTCTACTATTTGAAGCCCTTCGAGAAGGCCTGGAAGAAGAAATGGACAGAGATCCCCTAGTATGCGTAATGGGTGAAGATGTGGGCCACTAT
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gctcttatctctgtatgttctgtgagatataaaacctacttccatgtaaggtttatgccttttgccacagcataagcataactaaatttaacttgtgcagACATGAGCTATTACTTTTCGAGGCTCTTCAAGAAGGTCTAGAAGAAGAGATGGACAGAGATCCACATGTATGTGTCATGGGTGAAGATGTAGGCCATTAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcatcagaaatctcaaaacaagtagtgatgctattttcctgatttctttcctcagGCATGAGCTTCTACTATTTGAAGCCCTTCGAGAAGGCCTGGAAGAAGAAATGGACAGAGATCCCCTAGTATGCGTAATGGGTGAAGATGTGGGCCACTAT
tcctgat putative branch site (score: 3)
ctattttcctgatttc CT-rich tract
atttcttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gagtctaattcttttttttcattgattaggccaattcattggctttcatcagaaatctcaaaacaagtagtgatgctattttcctgatttctttcctcagGCATGAGCTTCTACTATTTGAAGCCCTTCGAGAAGGCCTGGAAGAAGAAATGGACAGAGATCCCCTAGTATGCGTAATGGGTGAAGATGTGGGCCACTAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - ccaattc
- - - - - - - - - - - - - - - - - - - -tggcttt
- - - - - - - - - - - - - - - - - - - - - - - - - agaaatc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaacaa