Sequence
atgc intronic sequence ATGC exonic sequence...aaatgatttggatgatatcattgatatggcattttctgtgcaaattaatcccgatgacaatcaagtttaatgaaatttacacttttgtcatctcttgcagAGAAGAAATAGTTTTAACCAAGGAAGGAGAAGGGTGAGTGGAAGATCTCTAAAGGCTCAGAGAGAAGATAGCATTAGAAGAACAGTATATGTTTCTGAGA
Basic information
species | Glycine max |
transcript | GLYMA08G18810.2 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G18810.1 (Glycine max), 3'ss of exon 1
lower sequence: AT3G14450.1 (Arabidopsis thaliana), 3'ss of exon 1
----aaatgatttggatgatatcattgatatggcattttctgtgcaaattaatcccgatgacaatcaagtttaatgaaatttacacttttgtcatctcttgcagAGAAGAAATAGTTTTAACCAAGGAAGGAGAAGGGTGAGTGGAAGATCTCTAAAGGCTCAGAGAGAAGATAGCATTAGAAGAACAGTATATGTTTCTGAGA---
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gtaaaaatggatttgatgattcca---atgtgagttttgttgtaaatctttaaactt-tgactaaggggtt----gttgtgtttattggtgtttgtgattatagAGAAGAAAC---TATAGCCAAGGGAGAAGGAGGTTAACTGGAAGAATTTCTAAGGCTCAAAGAGAGGATAGTATTAGAAGAACAGTTTATGTTTCTGACATTG
upper sequence: GLYMA08G18810.1 (Glycine max), 3'ss of exon 1
lower sequence: AT1G53650.2 (Arabidopsis thaliana), 3'ss of exon 1
aaatgatttggatg-atatcattgatatggcattttctgtgcaaattaatcccgatgacaatcaagtttaatgaaatttacacttttgtcatctcttgcagAGAAGAAATAGTTTTAACCAAGGAAGGAGA---AGGGTGAGTGGAAGATCTCTAAAGGCTCAGAGAGAAGATAGCATTAGAAGAACAGTATATGTTTCTGAGA
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acattgtcaagttttgcaactcttatatgatcgttacttaacat-ttcattaagagttttggtaaattgtctgttttttgttttggctttgtggattacagAGAAGAAACAACTATAACCAAGGGAGGAGAGTGAGGTTACCTGGAAGAGCTTCTAAGGCTCAAAGAGAAGATAGTATTAGAAGAACAGTGTATGTCTCTG---
upper sequence: GLYMA08G18810.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv19s0176g00140.t01 (Vitis vinifera), 3'ss of exon 1
------aaatgatttggatgatatcattgatatggcattttctgtgcaaattaatcccgatgacaatcaagtttaatgaaatttacacttttgtcatctcttgcagAGAAGAAATAGTTTTAACCAAGGAAGGAGAAGGGTGAGTGGAAGATCTCTAAAGGCTCAGAGAGAAGATAGCATTAGAAGAACAGTATATGTTTCTGAGA
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tgtatcatatcatgtatcatgagtttttaaca-agcatgatttttcatactttattttgattttttactattttc-tgaaatttcatcttgtgt----tttggcagAGAAGAAATAATTATAACCAAGGAAGGAGGAGGTTGAGTGGGAGAGCATTTAGAGCTCAACGTGAAGATAGTATTCGCCGCACTGTGTATGTTTCTGATAMapped 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|7588627|gb|AW704419.1|AW704419EST: TGGTCAGCACTAAGCCCTCTGCTAATGAGAATTTCCTGAACAGTCGAAGG AGAAGAAATAGTTTTAACCAAGGAAGGAGAAGGGTGAGTGGAAGATCTCTA
genomic: TGGTCAGCACTAAGCCCTCTGCTAATGAGAATTTCCTGAACAGTCGAAGGgtaggattgt ... tctcttgcagAGAAGAAATAGTTTTAACCAAGGAAGGAGAAGGGTGAGTGGAAGATCTCTA
EST:
gi|19934604|gb|BQ079634.1|BQ079634EST: TGAGAATTTCCTGAACAGTCGAAGG AGAAGAAATAGTTTTAACCAAGGAAGGAGAAGGGTGAGTGGAAGATCTCTA
genomic: TGAGAATTTCCTGAACAGTCGAAGGgtaggattgt ... tctcttgcagAGAAGAAATAGTTTTAACCAAGGAAGGAGAAGGGTGAGTGGAAGATCTCTA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taatcccgatgacaatcaagtttaatgaaatttacacttttgtcatctcttgcagAGAAGAAATAGTTTTAACCAAGGAAGGAGAAGGGTGAGTGGAAGATCTCTAAAGGCTCAGAGAGAAGATAGCATTAGAAGAACAGTATATGTTTCTGAGA
cttttgtcatctctt CT-rich tract
aatcaagtttaatgaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaatgatttggatgatatcattgatatggcattttctgtgcaaattaatcccgatgacaatcaagtttaatgaaatttacacttttgtcatctcttgcagAGAAGAAATAGTTTTAACCAAGGAAGGAGAAGGGTGAGTGGAAGATCTCTAAAGGCTCAGAGAGAAGATAGCATTAGAAGAACAGTATATGTTTCTGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC