Sequence
atgc intronic sequence ATGC exonic sequence...agtgtctttaaaataaaggatataagagtttctgtaactaatcagctacttaatattcatttcttggttatctatttgtttttcctttggtttaaattagGTGGAAAGATCTGTCTCGTACAATGAGCACAGGCCAAGGAGGCCTCCACCGGACTTGCCTTCCCTGCTTCTCCATGGGAGAATAGTTTACATTGGCATGC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0060g02160.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os03g22430.1 (Oryza sativa), 3'ss of exon 1
-agtgtctttaaaataaaggatataagagtttctgtaac-taatcagctacttaatattcatttcttggttatctatttgtttttcctttggtttaaattagGTGGAAAGATCTGTC---TCGTACAATGAGCACAGGCCAAGGAGGCCTCCACCGGACTTGCCTTCCCTGCTTCTCCATGGGAGAATAGTTTACATTGGCATGC
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taatgcacccagcttaatc-atctgtatgtgcagagaacacctttattttcatactgaacgttgcttcacttaatactt-cattacctataatctgtggcagGTGGAACGATCTAGCAGTTCTTACAGCCAGCACAGGCCTAGAAGGCCTCCCCCTGACTTGCCATCATTGCTTCTTCATGGCCGAATTGTTTACATTGGCA---
upper sequence: Vv14s0060g02160.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA19G42180.2 (Glycine max), 3'ss of exon 1
------agtgtctttaaaataaaggatataagagtttctgtaactaatcagctacttaatattcatttcttggttatctatttgtttttcctttggtttaaattagGTGGAAAGATCTGTCTCGTACAATGAGCACAGGCCAAGGAGGCCTCCACCGGACTTGCCTTCCCTGCTTCTCCATGGGAGAATAGTTTACATTGGCATGC
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tggctgagtgacct----atatagtgtatactatttgtaatttgtatttcctgtagtcatgcttatatgttgg--ggtaactcaattaattgtgtggttgaattagGTTGAAAGGTCTGTTTCATACAACGAACACCGGCCCAGAAGGCCGCCACCTGACCTGCCTTCGCTGCTTCTCCATGGTAGAATTGTTTACATTGGCATGC
upper sequence: Vv14s0060g02160.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA03G39570.1 (Glycine max), 3'ss of exon 1
agtgtctttaaaataaaggatataagagtttctgtaactaatcagctactta---atattcatttcttggttatctatttgtttttcctttggtttaaattagGTGGAAAGATCTGTCTCGTACAATGAGCACAGGCCAAGGAGGCCTCCACCGGACTTGCCTTCCCTGCTTCTCCATGGGAGAATAGTTTACATTGGCATGC
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ttcctaagtgtgttatagagtgtatgc-tctttgtaatttgtatttcctctagtcatgcttatctcttga--ggtaactcaatccattgtgtggttgaattagGTTGAAAGATCTGTTTCATACAACGAACACCGACCCAGAAGGCCACCGCCTGACCTGCCTTCGCTGCTTCTCCATGGTAGAATTGTTTACATTGGCATGC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctacttaatattcatttcttggttatctatttgtttttcctttggtttaaattagGTGGAAAGATCTGTCTCGTACAATGAGCACAGGCCAAGGAGGCCTCCACCGGACTTGCCTTCCCTGCTTCTCCATGGGAGAATAGTTTACATTGGCATGC
acttaat putative branch site (score: 4)
tttttcctttggttt putative PPT
ttatctatttgttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agtgtctttaaaataaaggatataagagtttctgtaactaatcagctacttaatattcatttcttggttatctatttgtttttcctttggtttaaattagGTGGAAAGATCTGTCTCGTACAATGAGCACAGGCCAAGGAGGCCTCCACCGGACTTGCCTTCCCTGCTTCTCCATGGGAGAATAGTTTACATTGGCATGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - -aaaataa
- - - - - - - - - - -ataagag
- - - - - - - - - - - - - - - - - -aactaat
- - - - - - - - - - - - - - - - - - - - - cagctac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttcttgg