Sequence
atgc intronic sequence ATGC exonic sequence...tgcactgataagctttgtaaccttttggtgggatggaggtttgaggtatcattaattatggatttaagcaactggttttcactttcattgttcttttcagGTGATATGCTTGGGGGCCACCTAGATGACATGGAAGCAGATTGGACTAAACCTATAGTGAGCATGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0010g03650.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os11g29690.1 (Oryza sativa), 3'ss of exon 2
tgcactgataagctttgtaaccttttggtgg-gatggaggtttgaggt-atcattaattatggatttaagcaactggttttcactttc--attgttcttttcagGTGATATGCTTGGGGGCCACCTAGATGACATGGAAGCAGATTGGACTAAACCTATAGTGAGCATGAG
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-------gtatgtaatttgctccttcaacagtgactgtccttttagattgatataaatgataggaaataatctcaaagtttcatgttcctatccctgtctatagGTGACATGCTTGGTGGCCACGTTGATGACATGGAAGCAGATTGGAGTAAACCTATTGTAAGCATAAG
upper sequence: Vv01s0010g03650.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM5G844096_T02 (Zea mays), 3'ss of exon 4
----------tgcactgataagctttgtaaccttttggtgggatggaggttt---gaggtatcattaatta--tggatttaagcaactggttttcacttt-------cattgttctt-------ttcagGTGATATGCTTGGGGGCCACCTAGATGACATGGAAGCAGATTGGACTAAACCTATAGTGAGCATGAG
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gtatgtatagtatgtccgttaagatagtgaaggcttagattgatacatttttttagagttatc-ttgatgagctgtattcatgctccttctcgtttctgtactgaaatactaagcttagattgatgtagGTGACATGCTTGGTGGCCATGTTGATGACATGGAAGCAGATTGGACAAAACCTATTGTAAGCATAAG
upper sequence: Vv01s0010g03650.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA18G00970.1 (Glycine max), 3'ss of exon 4
tgcactgataagctttgtaaccttttggtgggatggaggtttgaggtatcattaattatggatt--taagcaactggtt--ttcactttcattgttcttttcagGTGATATGCTTGGGGGCCACCTAGATGACATGGAAGCAGATTGGACTAAACCTATAGTGAGCATGAG
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ctggttcttgagaaagaaaaccctttta---aacaaatttttagaacagtctgcttcgttgtttactagtcaacctctcactttatcttctatattattc-cagGGGACACATTGGGTGGCCACCTTGATGACATGGAAGCAGATTGGAGCAAGCCTATAGTTAGTCTAAG
upper sequence: Vv01s0010g03650.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA11G37040.1 (Glycine max), 3'ss of exon 4
-tgcactgataa--gctttgtaaccttttggtgggatggaggtttgag-gtatcattaattatggatttaagcaactggttttcactttcattgttcttttcagGTGATATGCTTGGGGGCCACCTAGATGACATGGAAGCAGATTGGACTAAACCTATAGTGAGCATGAG
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ttgtagtagtgaatgttttccagttcttgagaaatttttagaacagtctgcttcattgtttaccagtc--aacctctcattttatcttttata--ttattccagGGGACACATTGGGTGGCCACCTTGATGACATGGAAGCAGATTGGAGCAAGCCTATTGTTAGTCTAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtatcattaattatggatttaagcaactggttttcactttcattgttcttttcagGTGATATGCTTGGGGGCCACCTAGATGACATGGAAGCAGATTGGACTAAACCTATAGTGAGCATGAG
cattaat putative branch site (score: 3)
ttttcactttcattgt putative PPT
attaattatggattta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgcactgataagctttgtaaccttttggtgggatggaggtttgaggtatcattaattatggatttaagcaactggttttcactttcattgttcttttcagGTGATATGCTTGGGGGCCACCTAGATGACATGGAAGCAGATTGGACTAAACCTATAGTGAGCATGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - -tggtggg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttaagca