Sequence
atgc intronic sequence ATGC exonic sequencegtacgttttcttgaacgaatttctttttaggttcaagaattaagtttgaaaggctctaaatgtaaatatggttgttgctttatttgcagAAAGATATTGAAGCTGAGATGAGAAGGCTAAAGCTTGAACTTAAGCAAACTATGGACATGTATAGCTCAGCTTGTAAAGAAGCACTTACGGCAAAAAGAA
Basic information
species | Arabidopsis thaliana |
transcript | AT5G26150.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G26150.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA04G05600.1 (Glycine max), 3'ss of exon 8
gtacgttttcttgaacgaatttctttttaggttcaagaattaagtttgaaaggctctaaatgtaaatatggttgttgctttatttgcagAAAGATATTGAAGCTGAGATGAGAAGGCTAAAGCTTGAACTTAAGCAAACTATGGACATGTATAGCTCAGCTTGTAAAGAAGCACTTACGGCAAAAAGAA
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---------------------------------------gtgagattaagag--cctaactatagagtc--tttttacttcattt-cagAAAGAGCTTGAAGCCGAGATGAAAAGATTGAGGCTTGAACTGAAGCAAACTATGGACATGTACAGCTCAGCTTGCAAGCAAGCAATCTCAGCCAAAAATC
upper sequence: AT5G26150.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA17G33440.1 (Glycine max), 3'ss of exon 2
--------------------------------------------------------gtacgttttcttgaacgaatttctttt-taggttcaagaattaagtttgaaaggctctaaatgtaaatatggttgttgctttatttgcagAAAGATATTGAAGCTGAGATGAGAAGGCTAAAGCTTGAACTTAAGCAAACTATGGACATGTATAGCTCAGCTTGTAAAGAAGCACTTACGGCAAAAAGAA
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gtaccaaaccaaccttataactcctcataaattggattatctttgttgtaaaactagaaccattatgtggtcaagttaatatggtaaatttaagtggtaaatttttttggctatgga-atatttactgtt-ttacttcattc-cagGGAGATTTGGAAGCTGCGATGAAAATGTTGAGGCTCAAATTGAAGCAAACTATGGACATGTACAGCTCAGCCCA-AAACAAG------------------
upper sequence: AT5G26150.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: Vv04s0008g01360.t01 (Vitis vinifera), 3'ss of exon 5
gtacgttttcttgaacgaatttctttttaggttcaagaattaagtttgaaaggctcta-aatgtaaatatggttgttgctttatttgcagAAAGATATTGAAGCTGAGATGAGAAGGCTAAAGCTTGAACTTAAGCAAACTATGGACATGTATAGCTCAGCTTGTAAAGAAGCACTTACGGCAAAAAGAA
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----------gtaagtgaaaattttatgagaagtgagga--aattcagtgaagttatctgatttgatcatg--tgttgattcatttacagAAAGAATTAGCTGCTGAGATGAAAAGATTAAAGCTTGAACTGAAGCAAACCATGGACATGTACAGCACAGCTTGCAAAGAAGCAATAACAGCTAAACAGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aagaattaagtttgaaaggctctaaatgtaaatatggttgttgctttatttgcagAAAGATATTGAAGCTGAGATGAGAAGGCTAAAGCTTGAACTTAAGCAAACTATGGACATGTATAGCTCAGCTTGTAAAGAAGCACTTACGGCAAAAAGAA
ctctaaa putative branch site (score: 3)
ctttattt putative PPT
tctaaatgtaaatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacgttttcttgaacgaatttctttttaggttcaagaattaagtttgaaaggctctaaatgtaaatatggttgttgctttatttgcagAAAGATATTGAAGCTGAGATGAGAAGGCTAAAGCTTGAACTTAAGCAAACTATGGACATGTATAGCTCAGCTTGTAAAGAAGCACTTACGGCAAAAAGAA
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