Sequence
atgc intronic sequence ATGC exonic sequence...gtagaaattatgtgtaaagtcagaagaaactggttcattatttttcagctattgtctttgtcttgaagtaaatttccataactcaatgcacttcatctagGTAAATGGAAATCATGAGACCATGAATGTGGAAGGGGATTTCAGATATGTTGACTCTGGGGGATTTGATGAGTGTAATGATTTCTTAGAATATATCAATG
Basic information
species | Glycine max |
transcript | GLYMA02G39710.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G39710.1 (Glycine max), 3'ss of exon 3
lower sequence: AT1G07010.2 (Arabidopsis thaliana), 3'ss of exon 3
--------------------------------------------gtagaaattatgtgtaaagtcagaagaaactggttcattatttttcagctattgtctttgtcttgaagtaaatttccataactcaatg-cacttcatctagGTAAATGGAAATCATGAGACCATGAATGTGGAAGGGGATTTCAGATATGTTGACTCTGGGGGATTTGATGAGTGTAATGATTTCTTAGAATATATCAATG
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gtttttgattgctatcatacttgaatttcataagtaaattttacacagagaa-gcttttgcactctacacattttaatttgctagttctagaatgatgataattgataggactaacaaagagtaacttcttgtcacattttaaagGTTAATGGGAACCACGAGACAATGAATGTTGAAGGGGATTTCAGATATGTAGATGCGAGAGCATTTGATGAGTGTACTGATTTTCTTGACTACTTGGAGG
upper sequence: GLYMA02G39710.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv06s0004g07390.t01 (Vitis vinifera), 3'ss of exon 3
gtagaaattatgtgtaaagtcagaagaaactggttcatt--atttttcagctattgtctttgtcttgaagtaaatttccataactcaatgcacttcatctagGTAAATGGAAATCATGAGACCATGAATGTGGAAGGGGATTTCAGATATGTTGACTCTGGGGGATTTGATGAGTGTAATGATTTCTTAGAATATATCAATG
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-ctttaactttatttaattctatcaatggatgattttctgaaacttttagttctactttccctaattaatgtgctgttaatgttcttgtgt-tatgatatagGTTAACGGAAATCATGAGACTATGAATGTGGAAGGGGATTTCAGATATGTTGATTCAGGGGCATTTGATGAGTGTACAGATTTCCTTGAATACTTGGATGMapped 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|120530167|gb|EH258301.1|EH258301EST: TACGATCATTGGATAAACAGGCAAAAGCAAAAGGTGGAGCTGTGTTTCAG GTAAATGGAAATCATGAGACCATGAATGTGGAAGGGGATTTCAGATATGTT
genomic: TACGATCATTGGATAAACAGGCAAAAGCAAAAGGTGGAGCTGTGTTTCAGgtttgtcatt ... cttcatctagGTAAATGGAAATCATGAGACCATGAATGTGGAAGGGGATTTCAGATATGTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cagctattgtctttgtcttgaagtaaatttccataactcaatgcacttcatctagGTAAATGGAAATCATGAGACCATGAATGTGGAAGGGGATTTCAGATATGTTGACTCTGGGGGATTTGATGAGTGTAATGATTTCTTAGAATATATCAATG
ccataac putative branch site (score: 3)
cttcatct putative PPT
aagtaaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtagaaattatgtgtaaagtcagaagaaactggttcattatttttcagctattgtctttgtcttgaagtaaatttccataactcaatgcacttcatctagGTAAATGGAAATCATGAGACCATGAATGTGGAAGGGGATTTCAGATATGTTGACTCTGGGGGATTTGATGAGTGTAATGATTTCTTAGAATATATCAATG
- - - - tatgtgt
- - - - - - - - - - - - - - actggtt
- - - - - - - - - - - - - - - - - - - - - - - -gctattg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -caatgca