Sequence
atgc intronic sequence ATGC exonic sequence...acctaaagttatttaagtcccaatttttttatgattttatggttcacttttaatctcattagaaatctcattttccatttcattttattccttatgcaagGTTGATGAACGAGCCGTCCTCAAACACTTTGACTGGCCTGAAGGGAAAGCAGATGCACTAAGGGAGGCAGCTTTTGAATATCAGGATTTGATGAAATTGG
Basic information
species | Glycine max |
transcript | GLYMA02G11260.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G11260.1 (Glycine max), 3'ss of exon 5
lower sequence: AT3G25690.1 (Arabidopsis thaliana), 3'ss of exon 5
acctaaagttatttaagtcccaatttttttatgattttatggtt--cacttttaatctcattagaaatctcattttccatttcattttattccttatgcaagGTTGATGAACGAGCCGTCCTCAAACACTTTGACTGGCCTGAAGGGAAAGCAGATGCACTAAGGGAGGCAGCTTTTGAATATCAGGATTTGATGAAATTGG
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-------gtcatt-aactcctcttttcaacattactttctaaccgctatttcggttttttttttaaaactcacggatcaatctctatcgttttgtgt---agGTTGATGAAAGGGCAGTTCTTAAACACTTTGACTGGCCAGAAGGTAAAGCTGATGCGCTACGAGAAGCAGCTTTTGAATATCAAGATCTTATGAAACTGG
upper sequence: GLYMA02G11260.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv01s0011g02860.t01 (Vitis vinifera), 3'ss of exon 5
-----------------------------------acctaaagttatttaagtcccaatttttttatgattttatggttcacttttaatctcattagaaatctcattttccatt-tcattttattccttatgcaagGTTGATGAACGAGCCGTCCTCAAACACTTTGACTGGCCTGAAGGGAAAGCAGATGCACTAAGGGAGGCAGCTTTTGAATATCAGGATTTGATGAAATTGG
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gtatgcctttaaaacttcatctgttaaactggctattcttttcttttatagctgctaaacatgattctatgtcatggt--attcctaatttgatcatttattccaacccttttcatcaatttttttcccatc--agGTTGATGAACGGGCCGTTCTCAAGCACTTTGATTGGCCTGAAGGGAAAGCAGATGCATTAAGAGAAGCAGCCTTTGAATATCAAGACTTGATGAAATTGGMapped 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|13791699|gb|BG654290.1|BG654290EST: ATGACTTGGTGGCCTTTGTGAACTGGCTAGATGAGGAACTTTCCTTCTTG GTTGATGAACGAGCCGTCCTCAAACACTTTGACTGGCCTGAAGGGAAAGCA
genomic: ATGACTTGGTGGCCTTTGTGAACTGGCTAGATGAGGAACTTTCCTTCTTGgtatgccttt ... cttatgcaagGTTGATGAACGAGCCGTCCTCAAACACTTTGACTGGCCTGAAGGGAAAGCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acttttaatctcattagaaatctcattttccatttcattttattccttatgcaagGTTGATGAACGAGCCGTCCTCAAACACTTTGACTGGCCTGAAGGGAAAGCAGATGCACTAAGGGAGGCAGCTTTTGAATATCAGGATTTGATGAAATTGG
ttttaat putative branch site (score: 3)
tctcattttccatttc putative PPT
atttcattttatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
acctaaagttatttaagtcccaatttttttatgattttatggttcacttttaatctcattagaaatctcattttccatttcattttattccttatgcaagGTTGATGAACGAGCCGTCCTCAAACACTTTGACTGGCCTGAAGGGAAAGCAGATGCACTAAGGGAGGCAGCTTTTGAATATCAGGATTTGATGAAATTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - -agtccca