Sequence
atgc intronic sequence ATGC exonic sequence...ttgtgaatttgtctgtcctggttcataacttattttcaactctttcctcttgttaatatggaaaattgttatgttttccctgaaaattttcttcttctagATATCTTGATGCTGGAAGGGACATGGTTACTAGCTTGCAGTATGGGGCTCGATGCCCTTGTGGATACTGTCACATATCAGATGTAGAGTTTCATAAACAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0020g04650.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: GRMZM2G173868_T02 (Zea mays), 3'ss of exon 12
--------ttgtgaatttgtctgtcctggttcataacttattttcaactctttcctcttgttaatatggaaaattgttatgttttccctgaaaattttcttcttctagATATCTTGATGCTGGAAGGGACATGGTTACTAGCTTGCAGTATGGGGCTCGATGCCCTTGTGGATACTGTCACATATCAGATGTAGAGTTTCATAAACAG
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cctatagatacaaaagttgcaggctttgatacttcactcagctgta--tcctacctatattctatgccctggctt-taatgttttatct-----ttatattaatgcagATACCTTGATGTTGGAAGGGACATATTAGCAAGCCTTCAATATGGTGCCAGATGCCCTTGTGGTTACTGCCACATATCAGATGTGGAAACCCACAAGCAG
upper sequence: Vv05s0020g04650.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: GLYMA10G32320.1 (Glycine max), 3'ss of exon 12
ttgtgaatttgtctg---tcctggttcataact-tattttcaactctttcctcttgttaatatggaaaattgttatgttttccctgaaaattttcttcttctagATATCTTGATGCTGGAAGGGACATGGTTACTAGCTTGCAGTATGGGGCTCGATGCCCTTGTGGATACTGTCACATATCAGATGTAGAGTTTCATAAACAG
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--ttgaacttctatgaattttttgttgataggtgtgacgtaagttttattttgttgacaatttgacatgaaactagattctgtcttatctgtttctt--tgtagATATCTCGATGCTGGGAGGGACATGGTTGCTAGTTTACAGTATGGAACTCGATGCCCTTGTGGATATTGTCACATTTCTGATGTTGAGAATCACCAACAA
upper sequence: Vv05s0020g04650.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: GLYMA20G35290.1 (Glycine max), 3'ss of exon 9
ttgtgaatttgtctgtcctggttcataacttattttcaactctttcctcttgttaatatggaaaattgttatgttttccctgaaaattttcttcttctagATATCTTGATGCTGGAAGGGACATGGTTACTAGCTTGCAGTATGGGGCTCGATGCCCTTGTGGATACTGTCACATATCAGATGTAGAGTTTCATAAACAG
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-----------------------------gtaagttttattttgttgacaatttgacatgaaactagattctgtcttttctg-------tttctttgtagATATCTTGATGCTGGGAGGGACATGATTGCTAGTTTACAGTATGGAACTCGATGCCCTTGTGGATACTATCACATTTCTGATGTTGAGAATCACATGGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cctcttgttaatatggaaaattgttatgttttccctgaaaattttcttcttctagATATCTTGATGCTGGAAGGGACATGGTTACTAGCTTGCAGTATGGGGCTCGATGCCCTTGTGGATACTGTCACATATCAGATGTAGAGTTTCATAAACAG
tgttaat putative branch site (score: 3)
ttttcttcttct putative PPT
aaaattgttatgtttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttgtgaatttgtctgtcctggttcataacttattttcaactctttcctcttgttaatatggaaaattgttatgttttccctgaaaattttcttcttctagATATCTTGATGCTGGAAGGGACATGGTTACTAGCTTGCAGTATGGGGCTCGATGCCCTTGTGGATACTGTCACATATCAGATGTAGAGTTTCATAAACAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - -tgtctgt
- - - - - - - - -ctggttc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggaaaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaaaatt