Sequence
atgc intronic sequence ATGC exonic sequence...tacattgtccaaataattaaagtctattagaaagtgtattgtttaggcatttctctttagttttcagtttttttttttctgacttgattgtaactggcagGTATGACTACTTGTTTGATCCTGATGAGCCAGATGAATTTAAAGTCCCTTGTTTATGTAAAGCATCAAACTGCCGGAAATTCATGAATTAGGATTTATTC
Basic information
species | Glycine max |
transcript | GLYMA19G17460.2 |
intron # | 14 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G17460.2 (Glycine max), 3'ss of exon 14
lower sequence: AT5G53430.1 (Arabidopsis thaliana), 3'ss of exon 22
tacattgtccaaataattaaagtctattagaaagtgtattgtttaggcatttctctttagttttcagtttttttttttctgacttgattgtaactggcagGTATGACTACTTGTTTGATCCTGATGAGCCAGATGAATTTAAAGTCCCTTGTTTATGTAAAGCATCAAACTGCCGGAAATTCATGAATTAGGATTTATTC
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------gtatacacatc---actctcttgaa-----cataattcaagtatcaccctttgattcactgaatatgac---atggctgtgtgtgtttttgcagATACGATTACTTGTTTGATCCAGATGAACCTGATGAATTCAAGGTGCCGTGTCTATGTAAATCCCCCAACTGCAGGAAATTCATGAATTAGAGAGTTTTA
upper sequence: GLYMA19G17460.2 (Glycine max), 3'ss of exon 14
lower sequence: AT4G27910.1 (Arabidopsis thaliana), 3'ss of exon 22
-tacattgtccaaataattaaagtctattagaaagtgtattgtttaggcatttctctttagttttcagtttttttttttctgacttgattgtaactggcagGTATGACTACTTGTTTGATCCTGATGAGCCAGATGAATTTAAAGTCCCTTGTTTATGTAAAGCATCAAACTGCCGGAAATTCATGAATTAGGATTTATTC
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gtacacaacgcatttctatatataccattcttcaatctaaagctgattgattgtcat--agtttaagaaatgttgtgtggtgttttg----------gcagGTATGATTACTTATTTGATCCAGACGAGGCAGAGGAACTCAAGGTGCCATGCTTATGTAAAGCCCCTAACTGCAGGAAATTCATGAATTAGAATAGAAAG
upper sequence: GLYMA19G17460.2 (Glycine max), 3'ss of exon 14
lower sequence: Vv16s0098g00350.t01 (Vitis vinifera), 3'ss of exon 23
tacattgtccaaataattaaagtct---attagaaagtgtattgtttaggcatttc-tctttagttttcagtttttttttttctgacttgattgtaactggcagGTATGACTACTTGTTTGATCCTGATGAGCCAGATGAATTTAAAGTCCCTTGTTTATGTAAAGCATCAAACTGCCGGAAATTCATGAATTAGG-ATTTATTC
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-agatt-tcaaacaaattcagacttcagataaaagaaaacatacaccggccactacatgtttagagtgttgtgataaactatgtatggtg-ttgtg-tttgcagGTATGACTACTTGTTTGATCCCGATGAGCCGGACGAATGCAAGGTCCCCTGTTTGTGTAAAGCTCCAAACTGCAGAAAATTCATGAATTAGGTATTTACA- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggcatttctctttagttttcagtttttttttttctgacttgattgtaactggcagGTATGACTACTTGTTTGATCCTGATGAGCCAGATGAATTTAAAGTCCCTTGTTTATGTAAAGCATCAAACTGCCGGAAATTCATGAATTAGGATTTATTC
ttgtaac putative branch site (score: 2)
tttagttttcagtttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tacattgtccaaataattaaagtctattagaaagtgtattgtttaggcatttctctttagttttcagtttttttttttctgacttgattgtaactggcagGTATGACTACTTGTTTGATCCTGATGAGCCAGATGAATTTAAAGTCCCTTGTTTATGTAAAGCATCAAACTGCCGGAAATTCATGAATTAGGATTTATTC
- - - - ccaaata