Sequence
atgc intronic sequence ATGC exonic sequence...tagaaaatggtcgggttaatttactttttgtgtgtgtgcgagagaaaactactatttcacaaatatttggggaaacttggtgatttgaatttgatttcagGGGAAAAGTGGACGGGCTTTTCTGTTTACTCGTGCAATGAACGTTACAATAGGACCAAAAGAAGACAGGGAGCTCATGACGGGTCTCCACACTGTTGCTG
Basic information
species | Glycine max |
transcript | GLYMA20G35950.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G35950.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv02s0025g02370.t01 (Vitis vinifera), 3'ss of exon 1
------tagaaaatggtcgggttaatttactttttgtgtgtgtgcgagagaaaactactatttcacaaatatttggggaaacttggtgatttgaatttgatttcagGGGAAAAGTGGACGGGCTTTTCTGTTTACTCGTGCAATGAACGTTACAATAGGACCAAAAGAAGACAGGGAGCTCATGACGGGTCTCCACACTGTTGCTG
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ttcttttgatgcattggcta-tcatcttattttgtttgtaaccctgctagaag-ctttggccatatacatatcctg----actattttctaaaaaaatgaacttagGGAAGACATGGCCGGGCCTTCCTGTTCTCTCATGCGATGAATGTTAATGTTGGGCCCAAAGAGGACAGGCACCTCATGACTGGTCTCCACACTGTTGCGGMapped 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|9984904|gb|BE659012.1|BE659012EST: GTAGAAACCATGTTGCCCTTCATGACGATGTGATTTCAAAGGCCTTTCAG GGGAAAAGTGGACGGGCTTTTCTGTTTACTCGTGCAATGAACGTTACAATA
genomic: GTAGAAACCATGTTGCCCTTCATGACGATGTGATTTCAAAGGCCTTTCAGgttaacacta ... ttgatttcagGGGAAAAGTGGACGGGCTTTTCTGTTTACTCGTGCAATGAACGTTACAATA
EST:
gi|6964532|gb|AW433225.1|AW433225EST: GTAGAAACCATGTTGCCCTTCATGACGATGTGATTTCAAAGGCCTTTCAG GGGAAAAGTGGACGGGCTTTTCTGTTTACTCGTGCAATGAACGTTACAATA
genomic: GTAGAAACCATGTTGCCCTTCATGACGATGTGATTTCAAAGGCCTTTCAGgttaacacta ... ttgatttcagGGGAAAAGTGGACGGGCTTTTCTGTTTACTCGTGCAATGAACGTTACAATA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaactactatttcacaaatatttggggaaacttggtgatttgaatttgatttcagGGGAAAAGTGGACGGGCTTTTCTGTTTACTCGTGCAATGAACGTTACAATAGGACCAAAAGAAGACAGGGAGCTCATGACGGGTCTCCACACTGTTGCTG
atttgat putative branch site (score: 5)
tatttcacaaatattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tagaaaatggtcgggttaatttactttttgtgtgtgtgcgagagaaaactactatttcacaaatatttggggaaacttggtgatttgaatttgatttcagGGGAAAAGTGGACGGGCTTTTCTGTTTACTCGTGCAATGAACGTTACAATAGGACCAAAAGAAGACAGGGAGCTCATGACGGGTCTCCACACTGTTGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
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- - - - ggtcggg
- - - - - - - - - - - - - - -gtgtgtg
- - - - - - - - - - - - - - - - - - - - -gagaaaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tttgggg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cttggtg