Sequence
atgc intronic sequence ATGC exonic sequencegtgtgtttaataagaattctgcaactccataaacattattagtagtatcttgcctactcaaattaagatcctccagCTTTCAGAACCCTTCAAAATTTTTGAATTTGATTTTTGGAAACGGCCAGAGAGTTCTGGAGAAACTGAGCTGTGTGTAAAGGCAACTAATGATGGGAGAA
Basic information
species | Glycine max |
transcript | GLYMA05G04600.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G04600.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os06g01640.1 (Oryza sativa), 3'ss of exon 4
gtgtgtttaataagaattctgcaactccataaacattattagtagtatcttgcctactcaaattaagatcc-tccagCTTTCAGAACCCTTCAAAATTTTTGAATTTGATTTTTGGAAACGGCCAGAGAGTTCTGGAGAAACTGAGCTGTGTGTAAAGGCAACTAATGATGGGAGAA
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gtatggactttagttttgcaaaatctggtagaaaagtatt-gtcccaactcccaagtcctaatttgtcttaatgtagCTGTCAGAACCCTTCAAAGTTTTTGAATTTGACTTTTGGAAACGGCCAGATAGTCATCGTGAGGCCAATATCAAGATACGAACAACACGAGATGGATATG
upper sequence: GLYMA05G04600.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G037624_T01 (Zea mays), 3'ss of exon 4
gtgtgtttaataagaattctgcaactccataaacattattagtagtatcttgcctactca-aattaagatcctccagCTTTCAGAACCCTTCAAAATTTTTGAATTTGATTTTTGGAAACGGCCAGAGAGTTCTGGAGAAACTGAGCTGTGTGTAAAGGCAACTAATGATGGGAGAA
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--gtactgagttt---ttctgcgcat--gttgttttatttaataatgttgttccaagtcctaatttctttgctttagCTGTCAGAACCCTTCAAAGTTTTTGAATTTGACTTTTCGGAACGTCCAGATAGTCATCGTGAAACAAAGATTGAGATAAAAGCAACAGCTGATGGGCATG
upper sequence: GLYMA05G04600.1 (Glycine max), 3'ss of exon 4
lower sequence: AT4G16570.1 (Arabidopsis thaliana), 3'ss of exon 4
gtgtgtttaataagaattctgcaactccataaacattattagtagtatcttgcctactcaaat--taagatcctccagCTTTCAGAACCCTTCAAAATTTTTGAATTTGATTTTTGGAAACGGCCAGAGAGTTCTGGAGAAACTGAGCTGTGTGTAAAGGCAACTAATGATGGGAGAA
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gtactagtatcctgaacttctcc-ctacagttttgcaatgagctttagtttataaactcaattcatatattcatccagTTGTCAGAGCCCGTCAAAATATTTGAATTTGACTTTTGGAAACGGCCAGAAAGTAATGGAGAGCTTGATGTGCACATAGAAGCAAAAACCACGGGTAGTG
upper sequence: GLYMA05G04600.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv02s0154g00540.t01 (Vitis vinifera), 3'ss of exon 4
gtgtgtttaataagaattctgcaactccat-aaacattattagtagtatcttgcctactcaaattaagatcc-tccagCTTTCAGAACCCTTCAAAATTTTTGAATTTGATTTTTGGAAACGGCCAGAGAGTTCTGGAGAAACTGAGCTGTGTGTAAAGGCAACTAATGATGGGAGAA
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gtactggcattacatacttctctacaaagttagaaaagacaagctgtttagttcctactcaatttaatatttatccagCTGTCAGAACCCTTCAAAATTTTTGAATTTGACTTTTCGAAACGGCCAGACAGTCATGAGGAAACTGAACTACACATAAAGGCAATTGACAATGGCAGTGMapped 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|207794981|gb|GD767700.1|GD767700EST: GTCAGCAATATGCCATGCATTGCAATCCTATACAAGAAGAAATAAAACTG CTTTCAGAACCCTTCAAAATTTTTGAATTTGATTTTTGGAAACGGCCAGAG
genomic: GTCAGCAATATGCCATGCATTGCAATCCTATACAAGAAGAAATAAAACTGgtgtgtttaa ... gatcctccagCTTTCAGAACCCTTCAAAATTTTTGAATTTGATTTTTGGAAACGGCCAGAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.caactccataaacattattagtagtatcttgcctactcaaattaagatcctccagCTTTCAGAACCCTTCAAAATTTTTGAATTTGATTTTTGGAAACGGCCAGAGAGTTCTGGAGAAACTGAGCTGTGTGTAAAGGCAACTAATGATGGGAGAA
tcctcc CT-rich tract
ataaacattattagta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgtgtttaataagaattctgcaactccataaacattattagtagtatcttgcctactcaaattaagatcctccagCTTTCAGAACCCTTCAAAATTTTTGAATTTGATTTTTGGAAACGGCCAGAGAGTTCTGGAGAAACTGAGCTGTGTGTAAAGGCAACTAATGATGGGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA