Sequence
atgc intronic sequence ATGC exonic sequencegtaaagactctttgagctctaatctatctttacctctttgattgcatcaattgttactgaagagtcttaactttacaaattcttcacatcttctgcagAATATTCTCGTTGTCTCAAAGTACTACTCAAGGATTACCTTTAAGAGACTTGCAGAACTTTTATGCCTAACCACTGAG
Basic information
species | Arabidopsis thaliana |
transcript | AT5G64760.2 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G64760.2 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA05G32030.2 (Glycine max), 3'ss of exon 9
---------------------------------gtaaagactctttgagctctaatctatctttacctctttgattgcatcaattgttactgaagagtcttaactttacaaattcttcacatcttctgcagAATATTCTCGTTGTCTCAAAGTACTACTCAAGGATTACCTTTAAGAGACTTGCAGAACTTTTATGCCTAACCACTGAG
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gtaaataactgatgccattatatttcttctcacccatcaattttgttggttggtattgtatgatatgctttatgttttat--acttctttttgtgaacattaatatggagcatttttgttaccttt--cagAATATTCTTGTTGTATCAAAATACTATGCAAGAATTACATTGAAGAGACTTGCAGAGCTTTTGTGCCTCAGTATACAG
upper sequence: AT5G64760.2 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA08G15340.1 (Glycine max), 3'ss of exon 9
----------------------------------------gtaaagactctttgagctctaatctat-ctttacctctttgattgcatcaattgttactgaagagtcttaactttacaaattcttcacatcttctgcagAATATTCTCGTTGTCTCAAAGTACTACTCAAGGATTACCTTTAAGAGACTTGCAGAACTTTTATGCCTAACCACTGAG
| | || | || ||| ||||| || || || | || || || | | | | | | || ||| | ||| | ||||||||||| ||||| ||||| ||||| |||| ||||| || |||||||||||||| ||||| ||||| | ||
gtaaataactgatgacattatatttcttctcaccccatcaattttgttggttgatattgtatgatatgctttatgctttatgttttat-acttctttttgtgaacattaatatcgagcattttttcctacctttttcagAATATTCTTGTTGTATCAAAATACTATGCAAGAATTACATTGAAGAGACTTGCAGAGCTTTTGTGCCTCAGTGTACAG
upper sequence: AT5G64760.2 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: Vv07s0031g01970.t01 (Vitis vinifera), 3'ss of exon 9
gtaaagactctttgagc-tctaatc---tatctttacctctttgattgcatcaatt----gttactgaagagtcttaactttacaaattcttcacatcttctgcagAATATTCTCGTTGTCTCAAAGTACTACTCAAGGATTACCTTTAAGAGACTTGCAGAACTTTTATGCCTAACCACTGAG
||| | ||| || | | || | || | | | |||||| | | || |||| || | | | | | |||| || | | | ||||| || || ||||||||||| |||||||||||||| || || |||||||||||||| || || || || | | ||
gtagtgtttctctgtacatttagttccatacaataatttttttgatcatttgagttttgagttattgggtaattatttgtatgcaaaactgtc---ttcttttcagAACATCCTTGTTGTCTCAAAATACTACTCAAGGATAACGTTAAAGAGACTTGCAGAGCTGTTGTGTCTTAGCGTCCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gcatcaattgttactgaagagtcttaactttacaaattcttcacatcttctgcagAATATTCTCGTTGTCTCAAAGTACTACTCAAGGATTACCTTTAAGAGACTTGCAGAACTTTTATGCCTAACCACTGAG
tcttaac putative branch site (score: 2)
ttcttcacatcttct putative PPT
ttaactttacaaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaagactctttgagctctaatctatctttacctctttgattgcatcaattgttactgaagagtcttaactttacaaattcttcacatcttctgcagAATATTCTCGTTGTCTCAAAGTACTACTCAAGGATTACCTTTAAGAGACTTGCAGAACTTTTATGCCTAACCACTGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA