Sequence
atgc intronic sequence ATGC exonic sequence...catgaataaatgagattacttactttacgcgagtcagtttgtcatgaatttaactagtttgagtttacattgtaattaaccttgagagagttcatcgcagGATGTCTATTTGCGATTTCCATTGCAAAGGAGGAAGCCACCAAGTTGGGGACGGTCATTGGGATTGATCTTGGAACGACCTATTCATGTGTTGGTGTTTA
Basic information
species | Glycine max |
transcript | GLYMA08G02960.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G02960.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv16s0098g01580.t01 (Vitis vinifera), 3'ss of exon 1
catgaataaatgaga-ttacttactttacgcgagtcagtttgtcatgaatttaactagtttgagtttacattgtaattaaccttgagagagttcatcgcagGATGTCTATTTGCGATTTCCATTGCAAAGGAGGAAGCCACCAAGTTGGGGACGGTCATTGGGATTGATCTTGGAACGACCTATTCATGTGTTGGTGTTTA
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tttaactatgtttgagttaaactttatccctgagttctttaggtaagttttcagaatcaatggaattgaatgttgat-gaggttaatctacactatggcagGATGTTTGGTTGCGATCTCTATCGCAAAAGAGGAATCCAACAAATTGGGAACAGTTATTGGTATTGATCTTGGAACAACTTACTCTTGTGTTGGTGTTTA
upper sequence: GLYMA08G02960.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv02s0025g02140.t01 (Vitis vinifera), 3'ss of exon 1
--catgaataaatgagattacttactttacgcgagtcagtttgtcatgaatttaactagtttgagtttacattgtaa-ttaaccttgagagagttcatcgcagGATGTCTATTTGCGATTTCCATTGCAAAGGAGGAAGCCACCAAGTTGGGGACGGTCATTGGGATTGATCTTGGAACGACCTATTCATGTGTTGGTGTTTA
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agaaagaactgacaagctggatcacctgaactga---aaatggttctaagtgctggctgtgtgagctttatttgagtcttaatatttccaaactgtattgcagGATTTCTAGCTGCAATTTCCATTGCAAAAGAGGAAGCAACCAAGTTGGGAACTGTCATCGGGATAGATCTTGGAACAACCTACTCATGTGTTGGTGTTTAMapped 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|120530199|gb|EH258333.1|EH258333EST: CTCGTTTTCTCGCGGGTCTCTGCTTCCTCTCGCCATCATCGTTTCCTTAG GATGTCTATTTGCGATTTCCATTGCAAAGGAGGAAGCCACCAAGTTGGGGA
genomic: CTCGTTTTCTCGCGGGTCTCTGCTTCCTCTCGCCATCATCGTTTCCTTAGgtaataatca ... ttcatcgcagGATGTCTATTTGCGATTTCCATTGCAAAGGAGGAAGCCACCAAGTTGGGGA
EST:
gi|193684043|gb|FK622579.1|FK622579EST: CTCGTTTTCTCGCGGGTCTCTGCTTCCTCTCGCCATCATCGTTTCCTTAG GATGTCTATTTGCGATTTCCATTGCAAAGGAGGAAGCCACCAAGTTGGGGA
genomic: CTCGTTTTCTCGCGGGTCTCTGCTTCCTCTCGCCATCATCGTTTCCTTAGgtaataatca ... ttcatcgcagGATGTCTATTTGCGATTTCCATTGCAAAGGAGGAAGCCACCAAGTTGGGGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaatttaactagtttgagtttacattgtaattaaccttgagagagttcatcgcagGATGTCTATTTGCGATTTCCATTGCAAAGGAGGAAGCCACCAAGTTGGGGACGGTCATTGGGATTGATCTTGGAACGACCTATTCATGTGTTGGTGTTTA
aattaac putative branch site (score: 2)
tttacattgtaattaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
catgaataaatgagattacttactttacgcgagtcagtttgtcatgaatttaactagtttgagtttacattgtaattaaccttgagagagttcatcgcagGATGTCTATTTGCGATTTCCATTGCAAAGGAGGAAGCCACCAAGTTGGGGACGGTCATTGGGATTGATCTTGGAACGACCTATTCATGTGTTGGTGTTTA
catgaat