Sequence
atgc intronic sequence ATGC exonic sequencegtattccgccaatctctgcaacatgttatgaagttgactgttcaatctactgcaatttatgtatgtaaagtaaatcaatgaaaatctgagtggtgtggggatttgtttgttttgcagCAAGTTACGCAGCAAATGCAGATTCCACTGTCTTATGCTGATGCTGTAATTGGGACGTCGGGTTCAAACATAAGCTACACTAGACGTCTTAGTGGAGCAA
Basic information
species | Arabidopsis thaliana |
transcript | AT3G04610.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G04610.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA03G40840.1 (Glycine max), 3'ss of exon 5
gtattccgccaatctctgcaacatgttatgaagttgactgttcaatctactgcaatttatgtatgtaaagtaaatcaatgaaaatctgagtggtgtggggatttgtttgttttgcagCAAGTTACGCAGCAAATGCAGATTCCACTGTCTTATGCTGATGCTGTAATTGGGACGTCGGGTTCAAACATAAGCTACACTAGACGTCTTAGTGGAGCAA---
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------------gtgatgcaatatatacttatatggacc---tgatttcctgctctttataaatttta--ttacctttttttaatcataaagatg---gattttattgctattgtggcagATCACGCAGCAAATGCAAATTCCTCTATCTTATGCTGATGCTGTTATTGGAACAGCTGGAGCAAGTATAAGCTACATCAGACGAGCTAGTGGGGCTACTG
upper sequence: AT3G04610.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA19G43540.1 (Glycine max), 3'ss of exon 5
gtattccgccaatctctgcaacatgttatgaagttgactgttcaatctactgcaatttatgtatgtaaagtaaatcaatgaaaatctgagtggtgtggg--gatttgtttgtt-ttgcagCAAGTTACGCAGCAAATGCAGATTCCACTGTCTTATGCTGATGCTGTAATTGGGACGTCGGGTTCAAACATAAGCTACACTAGACGTCTTAGTGGAGCAA---
| || ||| ||| | || || || | || ||| | | |||| || | | | | | | |||| ||||| || ||| | |||||||||||||| ||||| || ||||||||||||||||| ||||| || | || ||| |||||||||| ||||| |||||| || |
----------------------aggtgatgcagtatatacttatatggacctgagttcctgttctttata-aaatttattactttttttatcataaagattaattttgttgttattttggcagATCACGCAGCAAATGCAAATTCCTCTATCTTATGCTGATGCTGTTATTGGAACAGCTGGAGCAAGTATAAGCTACATCAGACGAGCTAGTGGGGCTACTG
upper sequence: AT3G04610.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: Vv14s0081g00440.t01 (Vitis vinifera), 3'ss of exon 6
gtattccgccaatctctgcaacatgttatgaagttgactgttcaatctactgcaatttatgtatgtaaagtaaatcaatgaaaatctgagtggtgtggggatttgtttgttttgcagCAAGTTACGCAGCAAATGCAGATTCCACTGTCTTATGCTGATGCTGTAATTGGGACGTCGGGTTCAAACATAAGCTACACTAGACGTCTTAGTGGAGCAA---
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--------cgaattttggttgaac---aagcagttt-ttgctcactct----cacttcctgagtcctgttccttctaaaaagtgtttgaactctgaaataatctcatttttt----gcagGTAACACAACAAATGCAGATTCCTCTGTCTTATGCTGATGCCGTTATTGGAACAGCTGGTGCAAGTATAAGTTACATTAGGCGTGCTAGTGGGGCAACTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgtaaagtaaatcaatgaaaatctgagtggtgtggggatttgtttgttttgcagCAAGTTACGCAGCAAATGCAGATTCCACTGTCTTATGCTGATGCTGTAATTGGGACGTCGGGTTCAAACATAAGCTACACTAGACGTCTTAGTGGAGCAA
tttgtttt CT-rich tract
taaatcaatgaaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtattccgccaatctctgcaacatgttatgaagttgactgttcaatctactgcaatttatgtatgtaaagtaaatcaatgaaaatctgagtggtgtggggatttgtttgttttgcagCAAGTTACGCAGCAAATGCAGATTCCACTGTCTTATGCTGATGCTGTAATTGGGACGTCGGGTTCAAACATAAGCTACACTAGACGTCTTAGTGGAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA