Sequence
atgc intronic sequence ATGC exonic sequence...ccatgtttgcatttgattcgatgtgtaattggtttagtattgcatgaattttgagtccactttgtgtacttaaatcttgatttttcctggataattttagGAAGAAGCAAGATCTGTTGGGCAGCTCCGAAATCACAGATTGGCAAATTTGCTTGGTTGTTGTTCTGAAGGAGATGAGAGGTTACTTGTCGCAGAATTTA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv02s0025g03550.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G382104_T02 (Zea mays), 3'ss of exon 3
ccatgtttgcatttgattcgatgtgtaattggtttagt----attgcatgaattttgagtccactttgtgtacttaaatcttgatttttcctgga-----taattt-tagGAAGAAGCAAGATCTGTTGGGCAGCTCCGAAATCACAGATTGGCAAATTTGCTTGGTTGTTGTTCTGAAGGAGATGAGAGGTTACTTGTCGCAGAATTTA
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-------tgcataggattgaattt-tatttgctttacccacaagtgcaaattttctaggacatggtcaaacactcaaaa--tgaccttttgtgaaatacgtaatttgtagGAAGAAGCTAGATCAGTTGGCCTGCTCCGAAGCAAAAGGTTGGCAAATTTGCTTGGTTGTTGCTGTGAAGGCGATGAGAGATTGCTTGTTGCAGAATACA
upper sequence: Vv02s0025g03550.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G055561_T01 (Zea mays), 3'ss of exon 4
--ccatgtttgcatttgattcgat---gtgtaattggtttagtattgcatgaattttgagtccactttgtgtacttaaatcttgatttttcctggataattttagGAAGAAGCAAGATCTGTTGGGCAGCTCCGAAATCACAGATTGGCAAATTTGCTTGGTTGTTGTTCTGAAGGAGATGAGAGGTTACTTGTCGCAGAATTTA
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tcttttttgtgtatatgattggattttatttgcttgccccgaaagtgcaaattttctaagacatggtcaaacaatcaa-tctggcctttt----gatttgtgcagGAAGAAGCTAGATCAGTTGGCCTGCTCCGAAGCAAAAGGTTGGCAAATTTGCTTGGCTGTTGCTGCGAAGGTGATGAAAGGTTGCTTGTTGCAGAATACA
upper sequence: Vv02s0025g03550.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA05G37870.1 (Glycine max), 3'ss of exon 4
ccatgtttgcatttgattcgatgtgtaattggtttagtattgcatgaattttgagtccactttgtgtacttaaatctt----gatttttcctggataattttagGAAGAAGCAAGATCTGTTGGGCAGCTCCGAAATCACAGATTGGCAAATTTGCTTGGTTGTTGTTCTGAAGGAGATGAGAGGTTACTTGTCGCAGAATTTA
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---tttttccatgtggttagtgatatagttttcttcat-tcgcttacacatgctgttcaattttcataattagcttgttaaagaaacttctttccttccttcagGAGGAGGCTCGGGCCGTTGGTCAGCTCAGGAACCAAAGATTGATAAATCTGCTTGGATGTTGTTGTGAAGGTGAAGAAAGGTTACTTGTTGCAGAATATA
upper sequence: Vv02s0025g03550.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA08G01730.2 (Glycine max), 3'ss of exon 3
ccatgtttgcatttgattcgatgtgtaattggtttagtattgcatgaattttgagtccactttgtgtacttaaatctt----gatttttcctggataattttagGAAGAAGCAAGATCTGTTGGGCAGCTCCGAAATCACAGATTGGCAAATTTGCTTGGTTGTTGTTCTGAAGGAGATGAGAGGTTACTTGTCGCAGAATTTA
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---tttttccatgtggttagtgatatagttttcttcat-tcacttatacatgctgttcaatattcattattagcttgttaaagaaacttctttccttccttcagGAGGAGGCTAGGGCTGTTGGTCAGCTAAGGAACCAAAGATTGATAAATCTGCTTGGATGTTGTTGTGAAGGTGAAGAAAGGTTACTTGTTGCAGAATATA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaattttgagtccactttgtgtacttaaatcttgatttttcctggataattttagGAAGAAGCAAGATCTGTTGGGCAGCTCCGAAATCACAGATTGGCAAATTTGCTTGGTTGTTGTTCTGAAGGAGATGAGAGGTTACTTGTCGCAGAATTTA
tcttgat putative branch site (score: 4)
ttaaatcttgattttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ccatgtttgcatttgattcgatgtgtaattggtttagtattgcatgaattttgagtccactttgtgtacttaaatcttgatttttcctggataattttagGAAGAAGCAAGATCTGTTGGGCAGCTCCGAAATCACAGATTGGCAAATTTGCTTGGTTGTTGTTCTGAAGGAGATGAGAGGTTACTTGTCGCAGAATTTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
ccatgtt
- - - - gcatttg
- - - - - - - - - - - - - - - - - - - - -gcatgaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - gtccact