Sequence
atgc intronic sequence ATGC exonic sequencegtgagaatttgagaaaatctttgttattctgtagctcatttgtttaggcacatgcagcatgtgtctgatctgcatttctcttcatttcactgacatgattctgtcaatatgttagCCGGAATGGATGGCTCCTGAAGTTCTCCGCAATGAGCCCTCAAATGAGAA
Basic information
species | Glycine max |
transcript | GLYMA10G30070.1 |
intron # | 11 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G30070.1 (Glycine max), 3'ss of exon 11
lower sequence: AT1G08720.1 (Arabidopsis thaliana), 3'ss of exon 10
------gtg-agaatttgagaaaatctttgttattctgtagctcatttgtttaggcacatgca-gcatgtgtctgatctgcatttct-cttcatttc-actgacatgattctgtcaatatgttagCCGGAATGGATGGCTCCTGAAGTTCTCCGCAATGAGCCCTCAAATGAGAA
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gtgagaacgcagaacccttaaatctctttactttttgatagaaatgcaactttcctactggcatgcttgt-tataatctggggtacggcttcttctctaatcacatgcattgttaattttaccagCCTGAATGGATGGCTCCAGAAGTTCTACGCAATGAGCCCTCAAATGAAAA
upper sequence: GLYMA10G30070.1 (Glycine max), 3'ss of exon 11
lower sequence: Vv14s0030g01440.t01 (Vitis vinifera), 3'ss of exon 10
----------------------------gtgagaatttgagaaaatctttgttattctgtagctcatttgtttaggcacatgcagc-------atgtgtct-gatctgcatttct-cttcatttcactgac-----atgattc---tgtcaatatgttagCCGGAATGGATGGCTCCTGAAGTTCTCCGCAATGAGCCCTCAAATGAGAA
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gtgagaatctgagacttgcattcaagaattgattatgttactatctttattttctttttcatactatttacaaagaacaatccaacttgatgaatatgtcttgatcttgctttctactccatttctgcatctcttcatgatttaagtttctgtttgttagCCTGAGTGGATGGCCCCAGAAGTTCTCCGCAATGAAAATTCAAATGAGAAMapped 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|17153163|gb|BM143096.1|BM143096EST: CGG-T-CAGCCCACAACACTTTTTTGTCATCCAAGTCAACTGCTGGAACG CCGGAATGGATGGCTCCTGAAGTTCTCCGCAATGAGCCCTCAAATGAGAA
genomic: CGGTTGAAG--CACAACACTTTTTTGTCATCCAAGTCAACTGCTGGAACGgtgagaattt ... aatatgttagCCGGAATGGATGGCTCCTGAAGTTCTCCGCAATGAGCCCTCAAATGAGAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtgtctgatctgcatttctcttcatttcactgacatgattctgtcaatatgttagCCGGAATGGATGGCTCCTGAAGTTCTCCGCAATGAGCCCTCAAATGAGAA
cactgac putative branch site (score: 2)
aatatgtta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagaatttgagaaaatctttgttattctgtagctcatttgtttaggcacatgcagcatgtgtctgatctgcatttctcttcatttcactgacatgattctgtcaatatgttagCCGGAATGGATGGCTCCTGAAGTTCTCCGCAATGAGCCCTCAAATGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG