Sequence
atgc intronic sequence ATGC exonic sequence...aaaacatgcaggctctctctgatgatgatgttatttaaaaaaaaaaaaaaaaagagtaagggcaattagaattacaatgttactttgaaatattgaacagGTTACCTCAAGGAAGGACCAAGAGCAGTATTGGGCAGACAAAAACATGCCATACCGTTATGTTACAGTGACTGAATTTGCAAACAAGTTCAAGAGATTCC
Basic information
species | Glycine max |
transcript | GLYMA08G21540.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G21540.2 (Glycine max), 3'ss of exon 8
lower sequence: AT3G16340.2 (Arabidopsis thaliana), 3'ss of exon 7
-----------aaaacatgcaggctctctctgatgatgatgttatttaaaaaaaaaaaaaaaaagagtaagggcaattagaattacaatgttactttgaaatattgaacagGTTACCTCAAGGAAGGACCAAGAGCAGTATTGGGCAGACAAAAACATGCCATACCGTTATGTTACAGTGACTGAATTTGCAAACAAGTTCAAGAGATTCC
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gcagattattaattctatatgggttttccaaaatgat--ccacattccaataattattatgatagaagaaaattaatctgatccac----ttgccttgg-----taaacagGTAACTTCAAGGAAAGACCAAGAACAGTATTGGGCAGACTCAAAAAAACCATACAGTTACATTTCTGTCTCTGAATTCTCCAAACGATTCAGAACCTTCC
upper sequence: GLYMA08G21540.2 (Glycine max), 3'ss of exon 8
lower sequence: Vv09s0002g03550.t01 (Vitis vinifera), 3'ss of exon 7
aaaacatgcaggctctctctgatgatgatgtta-tttaaaaaaaaaaaaaaaaagagtaagggcaattagaattacaatgttactttgaaatattgaacagGTTACCTCAAGGAAGGACCAAGAGCAGTATTGGGCAGACAAAAACATGCCATACCGTTATGTTACAGTGACTGAATTTGCAAACAAGTTCAAGAGATTCC
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aaaagtttgtggccttgagtagtaatgagcccactttgtttcagtcatcagcccaattgaggcccaatattgatgtatgcaaacaatggaat-tgtcacagGTTACCTCAAGGAAGGATCAAGAGCAGTACTGGGCAGACAGAAGCAAGCCATACAGATACATACCAGTCTCGGAGTTTGCAAACCGGTTCAAGAGCTTCC
upper sequence: GLYMA08G21540.2 (Glycine max), 3'ss of exon 8
lower sequence: Vv09s0002g03640.t01 (Vitis vinifera), 3'ss of exon 7
aaaacatgcaggctctctctgatgatgatgtta-tttaaaaaaaaaaaaaaaaagagtaagggcaattagaattacaatgttactttgaaatattgaacagGTTACCTCAAGGAAGGACCAAGAGCAGTATTGGGCAGACAAAAACATGCCATACCGTTATGTTACAGTGACTGAATTTGCAAACAAGTTCAAGAGATTCC
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aaaagtttgtggccttgagtagtaatgagcccactttgtttcagtcttcagcccaattgagccccaatattgatgtatgcaaacaatggaat-tgtcacagGTTACCTCAAGGAAGGATCAAGAGCAGTACTGGGCAGACAAAAGCAAGCCATACAGATACATACCAGTCTCGGAGTTTGCAAACCGGTTCAAGAGCTTCC
upper sequence: GLYMA08G21540.2 (Glycine max), 3'ss of exon 8
lower sequence: Vv09s0002g03580.t01 (Vitis vinifera), 3'ss of exon 8
aaaacatgcaggctctctctgatgatgatgttatttaaaaaaaaaaaaaaaaagagtaagggcaattagaattacaatgttactt-----tgaaatattga----acagGTTACCTCAAGGAAGGACCAAGAGCAGTATTGGGCAGACAAAAACATGCCATACCGTTATGTTACAGTGACTGAATTTGCAAACAAGTTCAAGAGATTCC
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---------tacttttcccttgtcaaaatcccttttagtatgtataacttttggtactagccttttcttcctttctgtgacacttacttgtgatctgctgtggccacagGTTACCTCAAAGAAGGATCAAGAGCAGTACTGGGCAGATTCCACCGAGCCCTACCGATACGTATCAGTCACCGAATTCGCCACCCTGTTCAAGGCCTTCCMapped 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|213593658|gb|DB971680.1|DB971680EST: GTGGGTTCCGCTGTCCCGAAAGAAAGGGAACCGCTGATTTCTTGCAAGAG GTTACCTCAAGGAAGGACCAAGAGCAGTATTGGGCAGACAAAAACATGCCA
genomic: GTGGGTTCCGCTGTCCCGAAAGAAAGGGAACCGCTGATTTCTTGCAAGAGgtgtgtgatc ... tattgaacagGTTACCTCAAGGAAGGACCAAGAGCAGTATTGGGCAGACAAAAACATGCCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaaaaaaagagtaagggcaattagaattacaatgttactttgaaatattgaacagGTTACCTCAAGGAAGGACCAAGAGCAGTATTGGGCAGACAAAAACATGCCATACCGTTATGTTACAGTGACTGAATTTGCAAACAAGTTCAAGAGATTCC
aattagaattacaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaaacatgcaggctctctctgatgatgatgttatttaaaaaaaaaaaaaaaaagagtaagggcaattagaattacaatgttactttgaaatattgaacagGTTACCTCAAGGAAGGACCAAGAGCAGTATTGGGCAGACAAAAACATGCCATACCGTTATGTTACAGTGACTGAATTTGCAAACAAGTTCAAGAGATTCC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA