Sequence
atgc intronic sequence ATGC exonic sequencegtaaagtttttgtttcatggaaaaatacaatttttgctgtgtgcatatgtatggaaacatgtcctcactggggttcctttttccagatttatctaaccatatttggttcttttccacagGCACAGTGGTTGATTCTAAAATTTGCCATCCGACTGAATTTGATTTTTATCTCTGCAGCCATGCTGGTATTCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0020g04190.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: GLYMA20G28970.1 (Glycine max), 3'ss of exon 19
gtaaagtttttgtttcatggaaaaatacaatttttgctgtgtgcatatgtatggaaacatgtcctcactggggttcctttttccagatttatctaaccatatttggttcttttccacagGCACAGTGGTTGATTCTAAAATTTGCCATCCGACTGAATTTGATTTTTATCTCTGCAGCCATGCTGGTATTCAG
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gtatgttgcacattcct--aaaaatcttatgtaaagaaatgcatttctgaatcattctttggtttttcaaaatgattatcttatgggttggaattttcatgttttaaattgtctctcagGGACTGTCGTTGATTCCAAAATCTGCCATCCAACAGAATTTGATTTTTATCTCTGCAGCCATGCTGGCATCCAG
upper sequence: Vv05s0020g04190.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: GLYMA10G38770.1 (Glycine max), 3'ss of exon 19
gtaaagtttttgtttcatggaaaaatacaatttttgctgtgtgcatatgtatggaaacatg-tcctcactggggttcctttttccagatttatctaaccatatttggttcttttccacagGCACAGTGGTTGATTCTAAAATTTGCCATCCGACTGAATTTGATTTTTATCTCTGCAGCCATGCTGGTATTCAG
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gtatgttgcacattccc--aaaaagcttatctacagaaatgcatttttgaatcattctttggtttttaaaatgattatctaat--gggctggaattttcatgttttaaattgtctttcagGGACTGTTGTTGATACCAAAATCTGCCATCCAACAGAATTTGATTTTTATCTCTGCAGCCATGCTGGCATCCAG
upper sequence: Vv05s0020g04190.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: GLYMA02G00510.1 (Glycine max), 3'ss of exon 18
gtaaagtttttgtttcatggaaaaatacaatttttgctgtgtgcatatgtatggaaacatgtcctcactggg-gttcctttttccagatttatctaaccatatttggttcttttccacagGCACAGTGGTTGATTCTAAAATTTGCCATCCGACTGAATTTGATTTTTATCTCTGCAGCCATGCTGGTATTCAG
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------------------------gtatgatgactgttcc-tgaat-tgtttgtgttctttttgttaaaaaatgattgtctaattaggttaaccttttaacaattttatctgtttt-cagGGACTGTTGTTGATTCCAAAATCTGTCATCCAACAGAATTTGATTTTTATCTGTGCAGTCATGCTGGCATCCAG
upper sequence: Vv05s0020g04190.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: GLYMA10G00530.1 (Glycine max), 3'ss of exon 10
gtaaagtttttgtttcatggaaaaatacaatttttgctgtgtgcatatgtatggaaacatgtcctcactggggttcctttttccagatttatctaacc------atatttggttcttttccacagGCACAGTGGTTGATTCTAAAATTTGCCATCCGACTGAATTTGATTTTTATCTCTGCAGCCATGCTGGTATTCAG
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gtacaatgagtgttcc-tg---------aattgctcgtgtacacaaataaatgtgtcattttttttgtttaaaactgattgtcta-attggactaactttttaaataattttcatctgttttcagGGACTGTAGTTGATTCCAAAATCTGTCATCCAACAGAATTTGATTTTTATCTCTGTAGTCATGCTGGCATCCAG
upper sequence: Vv05s0020g04190.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: EFJ19862 (Selaginella moellendorffii), 3'ss of exon 17
gtaaagtttttgtttcatggaaaaatacaatttttgctgtgtgcatatgtatggaaacatgtcctcactggggttcctttttccagatttatctaaccatatttggttcttttccacagGCACAGTGGTTGATTCTAAAATTTGCCATCCGACTGAATTTGATTTTTATCTCTGCAGCCATGCTGGTATTCAG
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------------------------------------------------gtgctgttgccgtttataagtggcgaattt------agat--aactaatgagagaccgttttccttcacagGCACTGTGGTGGATTCGAAGATTTGCCATCCAACGGAGTTTGACTTCTACCTTTGCAGCCATGCCGGCATTCAG
upper sequence: Vv05s0020g04190.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: EFJ14095 (Selaginella moellendorffii), 3'ss of exon 17
gtaaagtttttgtttcatggaaaaatacaatttttgctgtgtgcatatgtatggaaacatgtcctcactggggttcctttttccagatttatctaaccatatttggttcttttccacagGCACAGTGGTTGATTCTAAAATTTGCCATCCGACTGAATTTGATTTTTATCTCTGCAGCCATGCTGGTATTCAG
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----------------------------------------------------gtgctgttgccgtcaataagtggcgaattt--agat--aactaatgagagaccgttttccttcacagGCACTGTGGTGGATTCGAAGATTTGCCATCCAACGGAGTTTGACTTCTACCTTTGCAGCCATGCCGGCATTCAG
upper sequence: Vv05s0020g04190.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: EFJ14096 (Selaginella moellendorffii), 3'ss of exon 17
gtaaagtttttgtttcatggaaaaatacaatttttgctgtgtgcatatgtatggaaacatgtcctcactggggttcctttttccagatttatctaaccatatttggttcttttccacagGCACAGTGGTTGATTCTAAAATTTGCCATCCGACTGAATTTGATTTTTATCTCTGCAGCCATGCTGGTATTCAG
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----------------------------------------------------gtgctgttgccgttaataagtggcgaattt--agat--aactaatgagagaccgttttccttcacagGCACTGTGGTGGATTCGAAGATTTGCCATCCAACGGAGTTTGACTTCTACCTTTGCAGCCATGCCGGCATTCAGMapped 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|37188618|gb|CF607967.1|CF607967EST: CAACCACAGGGACCGGAACAGCACTGACAGAAGCGGGAATATTTTGCCTG GCACAGTGGTTGATTCTAAAATTTGTCATCCGACTGAATTTGATTTTTATC
genomic: CAACCACAGGGACCGGAACAGCACTGACAGAAGCGGGAATATTTTGCCTGgtaaagtttt ... ttttccacagGCACAGTGGTTGATTCTAAAATTTGCCATCCGACTGAATTTGATTTTTATC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcactggggttcctttttccagatttatctaaccatatttggttcttttccacagGCACAGTGGTTGATTCTAAAATTTGCCATCCGACTGAATTTGATTTTTATCTCTGCAGCCATGCTGGTATTCAG
atctaac putative branch site (score: 2)
tttggttcttttcc putative PPT
atttatctaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaagtttttgtttcatggaaaaatacaatttttgctgtgtgcatatgtatggaaacatgtcctcactggggttcctttttccagatttatctaaccatatttggttcttttccacagGCACAGTGGTTGATTCTAAAATTTGCCATCCGACTGAATTTGATTTTTATCTCTGCAGCCATGCTGGTATTCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG