Sequence
atgc intronic sequence ATGC exonic sequence...tacccagattctacagtttatttcatattcatgtactagcattttgttatctttagtacacaaataattgtcctagttgatgaaccttttcttttggtagCAATATGGCGCGATCAGAACTTTGTACACTGCATGTAAACATAGGGGCTTTGTGATGATATCTTACTATGACATCCGTGCTGCGCGAACTGCTATGCGTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv10s0003g02670.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA09G11630.1 (Glycine max), 3'ss of exon 2
-------tacccagattctacagtttatttcatattcatgtactagcattttgttatctttagtacacaaataattgtcctagttgatgaaccttttcttttggtagCAATATGGCGCGATCAGAACTTTGTACACTGCATGTAAACATAGGGGCTTTGTGATGATATCTTACTATGACATCCGTGCTGCGCGAACTGCTATGCGTG
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ataattgttcattgcctctattggataatctgcatatctttgttaaga----agaaaatttgaaacaagataaattatt---aatggtgtttcaatttttttcccagCAATATGGTGATATTAGAACCCTATACACTGCATGCAAACATCGGGGATTTGTAATGATATCCTATTATGATATCCGTGCTGCTCGAACAGCTATGCGTT
upper sequence: Vv10s0003g02670.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA15G23420.1 (Glycine max), 3'ss of exon 4
--------tacccagattctacagtttatttcatattcatgtactagcattttgttatctttagtacacaaataattgtcctagttgatgaaccttttcttttggtagCAATATGGCGCGATCAGAACTTTGTACACTGCATGTAAACATAGGGGCTTTGTGATGATATCTTACTATGACATCCGTGCTGCGCGAACTGCTATGCGTG
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cataattgttcattgcctctattggataatctgcatatctttgttaaga----agaaaatttgaaacaagataaattattaatggtgtttcaatttttttcc----agCAATATGGTGATATTAGAACCCTATATACTGCATGCAAACATCGGGGATTTGTAATGATATCCTATTATGATATCCGTGCTGCTCGAACAGCTATGCGTG
upper sequence: Vv10s0003g02670.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: PP1S271_57V6.1 (Physcomitrella patens), 3'ss of exon 3
tacccagat--tctacagtttatttcatattcatgtactagcattttgttatctttagtacacaaataattgtcctagttgatgaaccttttcttt-tggtagCAATATGGCGCGATCAGAACTTTGTACACTGCATGTAAACATAGGGGCTTTGTGATGATATCTTACTATGACATCCGTGCTGCGCGAACTGCTATGCGTG
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ttggggggtggtgtgtaggtt-tgtggtgggcaggagtggttggggtgcggggtgaggagcagcgctaacgagc--ggtggtttgacttgtggtgtgtaacagCAATACGGGGCGATCCGGACGTTGTACACCGCATGCAAGCACAGAGGGTTCGTGATGATATCGTACTATGACATCCGGGCAGCGCGCAGCGCGATGAGGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttatctttagtacacaaataattgtcctagttgatgaaccttttcttttggtagCAATATGGCGCGATCAGAACTTTGTACACTGCATGTAAACATAGGGGCTTTGTGATGATATCTTACTATGACATCCGTGCTGCGCGAACTGCTATGCGTG
agttgat putative branch site (score: 5)
ccttttcttttggt putative PPT
acaaataatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tacccagattctacagtttatttcatattcatgtactagcattttgttatctttagtacacaaataattgtcctagttgatgaaccttttcttttggtagCAATATGGCGCGATCAGAACTTTGTACACTGCATGTAAACATAGGGGCTTTGTGATGATATCTTACTATGACATCCGTGCTGCGCGAACTGCTATGCGTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
-acccaga
- - - - - - - - - - - - - - -catgtac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - cacaaat