Sequence
atgc intronic sequence ATGC exonic sequence...tacagtaaagatgtctgcttgttggttataataggtaactgttcatttcattgatatcaatagcaaagataacttatgaatctggtacttttctgtgcagGTGTGATTCTGCTTTTGTATCTGGTGTCACGTTGATGCTATTAACTTGCATTGTGTGGTTAAAATTGGTGTCATATGCACATACAAACTATGATATGAGA
Basic information
species | Glycine max |
transcript | GLYMA09G07520.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA09G07520.1 (Glycine max), 3'ss of exon 5
lower sequence: AT2G19450.1 (Arabidopsis thaliana), 3'ss of exon 5
tacagtaaagatgtctgcttgttggttataataggtaactg--ttcatttcattgatatcaatagcaaagataacttatgaatctggtacttttc----tgtgcagGTGTGATTCTGCTTTTGTATCTGGTGTCACGTTGATGCTATTAACTTGCATTGTGTGGTTAAAATTGGTGTCATATGCACATACAAACTATGATATGAGA
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------------------------gtgatactgtttttctggtctcagtttgt-gatactgtttttaagtttagttgtctgacccggtgatcttgaaaatggacagGTGTGATTCTGCTTTTTTATCAGGTGTCACTTTGATGCTCCTCACTTGCATTGTGTGGCTAAAGTTGGTTTCTTATGCTCATACTAGCTATGACATAAGA
upper sequence: GLYMA09G07520.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv11s0016g01930.t01 (Vitis vinifera), 3'ss of exon 5
tacagtaaagatgtctgcttgttggttataataggtaactgttcattt----cattgatatcaatagcaaag-ataacttatgaatc---tggtacttttctgtgcagGTGTGATTCTGCTTTTGTATCTGGTGTCACGTTGATGCTATTAACTTGCATTGTGTGGTTAAAATTGGTGTCATATGCACATACAAACTATGATATGAGA
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--------ccatgtaacttgacctgttgtaatgcattctcctttgttaaagatacgaaaaaaagtggtagaacatgatttatttactatatggttctaaattgtgcagGTGTGATTCAGCTGTTCTCTCTGGTGTCACACTAATGCTCTTTGCTTGCATTGTGTGGTTAAAATTGGTATCTTTTGCACATACAAATTATGACATGAGAMapped 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|120493969|gb|EH222136.1|EH222136EST: CTAATAATATCAACTGTTGAACTGTGCTATCCGGTTTTAGTAATACTCAG GTGTGATTCTGCTTTTGTATCTGGTGTCACGTTGATGCTATTAACTTGCAT
genomic: CTAATAATATCAACTGTTGAACTGTGCTATCCGGTTTTAGTAATACTCAGgtcagtgtag ... ttctgtgcagGTGTGATTCTGCTTTTGTATCTGGTGTCACGTTGATGCTATTAACTTGCAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttcattgatatcaatagcaaagataacttatgaatctggtacttttctgtgcagGTGTGATTCTGCTTTTGTATCTGGTGTCACGTTGATGCTATTAACTTGCATTGTGTGGTTAAAATTGGTGTCATATGCACATACAAACTATGATATGAGA
agataac putative branch site (score: 3)
tacttttct putative PPT
atatcaata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tacagtaaagatgtctgcttgttggttataataggtaactgttcatttcattgatatcaatagcaaagataacttatgaatctggtacttttctgtgcagGTGTGATTCTGCTTTTGTATCTGGTGTCACGTTGATGCTATTAACTTGCATTGTGTGGTTAAAATTGGTGTCATATGCACATACAAACTATGATATGAGA
- - - - - -tgtctgc
- - - - - - - - - - gttggtt
- - - - - - - - - - - - - - - - - gtaactg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctggtac