Sequence
atgc intronic sequence ATGC exonic sequence...tcatttgtgccttcaaattctgtggcaaataaaactggatcttttcatgtatacatgaaacattttaaagttaatgaatactcaatattgttgtttgcagGTTCGTGTCTGTGCTTTCCCCGCAGGTCGGTTGGGGTTGGATGGGATTGGGATAAGTCCAGACTGCAATCCTGAAAATAGGGCTACCCCTCGAGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv12s0034g01170.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA08G19720.1 (Glycine max), 3'ss of exon 5
tcatttgtgccttcaaattc---tgtggc-aaataaaactggatcttttcatgtatacat-gaaacattttaaagttaatgaatactcaatattgttgtttgcagGTTCGTGTCTGTGCTTTCCCCGCAGGTCGGTTGGGGTTGGATGGGATTGGGATAAGTCCAGACTGCAATCCTGAAAATAGGGCTACCCCTCGAGAG
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-ctctgttatgtttcaattcagatgtgactaaatagatatgatttatcatgtttatatattgtctcatttcaacctcaatgagtatttaccact----ttcacagGTTCGTGTTTGTGCTTTTCCAGCAAGTCGATTGGGATTGCAAGGGATAGGAATTAGTCCAGACTGCAATCCTGAAAACGTGTGTAGCCCACGACAG
upper sequence: Vv12s0034g01170.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA15G05300.1 (Glycine max), 3'ss of exon 5
tcatttgtgccttcaaattc---tgtggcaaataaaactggatcttttcatgtatacat---gaaacattttaaagttaatgaatactcaatattgttgtttgcagGTTCGTGTCTGTGCTTTCCCCGCAGGTCGGTTGGGGTTGGATGGGATTGGGATAAGTCCAGACTGCAATCCTGAAAATAGGGCTACCCCTCGAGAG
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-ctctattatgtttcaattcagatgtgactaaacagatttgat-ttatcatgtttatatattgtcgcgtttcaacctcggtgagtatttacctct----ttcacagGTTCGTGTTTGTGCTTTTCCAGCAAGTCGATTGGGATTGCAAGGGATAGGAATTAGTCCAGACTGCAATCCTGAAAACGTGTGTAGCCCACGACAGMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|110375680|gb|EC940690.1|EC940690EST: TTGATGGGGGTTTGACATTGTTTATGCCCCCAACATCCGCTTCTCAGACG GTTCGTGTCTGTGCTTTCCCTGCAGGTCGGTTGGGGTTGGATGGGATTGGG
genomic: TTGATGGGGGTTTGACATTGTTTATGCCCCCAACATCCGCTTCTCAGACGgtatttgctt ... ttgtttgcagGTTCGTGTCTGTGCTTTCCCCGCAGGTCGGTTGGGGTTGGATGGGATTGGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.catgtatacatgaaacattttaaagttaatgaatactcaatattgttgtttgcagGTTCGTGTCTGTGCTTTCCCCGCAGGTCGGTTGGGGTTGGATGGGATTGGGATAAGTCCAGACTGCAATCCTGAAAATAGGGCTACCCCTCGAGAG
agttaat putative branch site (score: 4)
attttaaagttaatga 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tcatttgtgccttcaaattctgtggcaaataaaactggatcttttcatgtatacatgaaacattttaaagttaatgaatactcaatattgttgtttgcagGTTCGTGTCTGTGCTTTCCCCGCAGGTCGGTTGGGGTTGGATGGGATTGGGATAAGTCCAGACTGCAATCCTGAAAATAGGGCTACCCCTCGAGAG
- - - - gccttca
- - - - - - - - - - - - - aaataaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - gaaacat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aatgaata