Sequence
atgc intronic sequence ATGC exonic sequencegtactagtatcctgaacttctccctacagttttgcaatgagctttagtttataaactcaattcatatattcatccagTTGTCAGAGCCCGTCAAAATATTTGAATTTGACTTTTGGAAACGGCCAGAAAGTAATGGAGAGCTTGATGTGCACATAGAAGCAAAAACCACGGGTAGTG
Basic information
species | Arabidopsis thaliana |
transcript | AT4G16570.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G16570.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: LOC_Os06g01640.1 (Oryza sativa), 3'ss of exon 4
gtactagtatcctgaacttctccctacagttttgcaatgagctttagtttataaactcaattcata-----tattcatccagTTGTCAGAGCCCGTCAAAATATTTGAATTTGACTTTTGGAAACGGCCAGAAAGTAATGGAGAGCTTGATGTGCACATAGAAGCAAAAACCACGGGTAGTG
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---gtatggactttagttttgc---aaaatctggtagaaaagtattgtcccaactcccaagtcctaatttgtcttaatgtagCTGTCAGAACCCTTCAAAGTTTTTGAATTTGACTTTTGGAAACGGCCAGATAGTCATCGTGAGGCCAATATCAAGATACGAACAACACGAGATGGATATG
upper sequence: AT4G16570.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA05G04600.1 (Glycine max), 3'ss of exon 4
gtactagtatcctgaacttctcc-ctacagttttgcaatgagctttagtttataaactcaattcatatattcatccagTTGTCAGAGCCCGTCAAAATATTTGAATTTGACTTTTGGAAACGGCCAGAAAGTAATGGAGAGCTTGATGTGCACATAGAAGCAAAAACCACGGGTAGTG
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gtgtgtttaataagaattctgcaactccataaacattattagtagtatcttgcctactcaaat--taagatcctccagCTTTCAGAACCCTTCAAAATTTTTGAATTTGATTTTTGGAAACGGCCAGAGAGTTCTGGAGAAACTGAGCTGTGTGTAAAGGCAACTAATGATGGGAGAA
upper sequence: AT4G16570.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: Vv02s0154g00540.t01 (Vitis vinifera), 3'ss of exon 4
gtactagtatcctgaacttctccctacagttttgcaa--tgagct--ttagtttataaactcaattcatatattcatccagTTGTCAGAGCCCGTCAAAATATTTGAATTTGACTTTTGGAAACGGCCAGAAAGTAATGGAGAGCTTGATGTGCACATAGAAGCAAAAACCACGGGTAGTG
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gtactggcattacatacttctctacaaagttagaaaagacaagctgtttagttccta--ctcaattta-atatttatccagCTGTCAGAACCCTTCAAAATTTTTGAATTTGACTTTTCGAAACGGCCAGACAGTCATGAGGAAACTGAACTACACATAAAGGCAATTGACAATGGCAGTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cctacagttttgcaatgagctttagtttataaactcaattcatatattcatccagTTGTCAGAGCCCGTCAAAATATTTGAATTTGACTTTTGGAAACGGCCAGAAAGTAATGGAGAGCTTGATGTGCACATAGAAGCAAAAACCACGGGTAGTG
ttcatcc CT-rich tract
tttagtttataaactc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtactagtatcctgaacttctccctacagttttgcaatgagctttagtttataaactcaattcatatattcatccagTTGTCAGAGCCCGTCAAAATATTTGAATTTGACTTTTGGAAACGGCCAGAAAGTAATGGAGAGCTTGATGTGCACATAGAAGCAAAAACCACGGGTAGTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA