Sequence
atgc intronic sequence ATGC exonic sequence...attagcttttttatgttctcttctattattcaattaccattaacctctatatgttctgctctcaaatttaacattttctttttcacttggattaattcagAGCTCATCATGGCTTTGGATGGGTTGGAGAATGGGCTAACACAGG
Basic information
species | Glycine max |
transcript | GLYMA20G31400.1 |
intron # | 13 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G31400.1 (Glycine max), 3'ss of exon 13
lower sequence: AT1G34320.1 (Arabidopsis thaliana), 3'ss of exon 11
-attagcttttttatgttctcttctattattcaattaccattaacctctatatgttctgctc--tcaaatttaacattttctttttcacttggattaattcagAGCTCATCATGGCTTTGGATGGGTTGGAGAATGGGCTAACACAGG
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tgatgtcttaattctgttaacaaaagcatgtaaaattcccttagt-tttaactattaaagtaagtcagacttattcttctgtcttttcttt--tctcaaccagAGCGCATCATGGTTTTGGATGGGTTGGAGAATGGGCAAGTTCCGG
upper sequence: GLYMA20G31400.1 (Glycine max), 3'ss of exon 13
lower sequence: Vv18s0076g00260.t01 (Vitis vinifera), 3'ss of exon 10
attagcttttttatgttctcttctattattcaattaccattaacctctatatgttctgctctcaa---atttaacat---tttctttttcacttggattaattcagAGCTCATCATGGCTTTGGATGGGTTGGAGAATGGGCTAACACAGG
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------gtttttatgtttttgtctcttttttatttattatttatttatttttcttttatcctaaactaacctggtgtgcttgtctctgcaattttgtctgtgtcagAGCTCATCATGGCTTTGGTTGGGTTGGCGAATGGGCCAATACCGG
upper sequence: GLYMA20G31400.1 (Glycine max), 3'ss of exon 13
lower sequence: PP1S54_228V6.1 (Physcomitrella patens), 3'ss of exon 10
attagcttttttatgttctcttctattattcaattaccattaacctctatatgttctgctctcaaatttaacattttcttt------ttcacttggattaattcagAGCTCATCATGGCTTTGGATGGGTTGGAGAATGGGCTAACACAGG
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------tcttgtgttatagttactgctatttcgtgaatgagtatcttgtttggttatactcaaatcatggacgatctctttaatgctttgaattgggttgccacagGAAGCATCATGGCTTTGGATGGGTTGGAGAGTGGGCGAATGCTGG
upper sequence: GLYMA20G31400.1 (Glycine max), 3'ss of exon 13
lower sequence: EFJ35129 (Selaginella moellendorffii), 3'ss of exon 9
attagcttttttatgttctcttctattattcaattaccattaacctctatatgttctgctctcaaatttaacattttctttttcacttggattaattcagAGCTCATCATGGCTTTGGATGGGTTGGAGAATGGGCTAACACAGG
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------------------------gttaattcat-atggtcaagctc-gtgtgaac-gct-----aaccagcctcctcttttttatc--aatc--tctagAGCTCATCACGGATTTGGATGGGTTGGCGAATGGGCAAATTCTGGMapped 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|193385525|gb|FK349865.1|FK349865EST: ATGGAGAAAATATTGCAGTGGCTTGTTCCTATTGCAGCCAACACAACGAA AGCTCATCATGGCTTTGGATGGGTTGGAGAATGGGCTAACACAGG
genomic: ATGGAGAAAATATTGCAGTGGCTTGTTCCTATTGCAGCCAACACAACGAAgtatatttgc ... attaattcagAGCTCATCATGGCTTTGGATGGGTTGGAGAATGGGCTAACACAGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctatatgttctgctctcaaatttaacattttctttttcacttggattaattcagAGCTCATCATGGCTTTGGATGGGTTGGAGAATGGGCTAACACAGG
gattaat putative branch site (score: 3)
tcaaatttaacatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
attagcttttttatgttctcttctattattcaattaccattaacctctatatgttctgctctcaaatttaacattttctttttcacttggattaattcagAGCTCATCATGGCTTTGGATGGGTTGGAGAATGGGCTAACACAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - ccattaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - -ctgctct