Sequence
atgc intronic sequence ATGC exonic sequencegtaaggatccatggaaacaaacttggaagtaattttttgtatcactaaatattcttagtgaaggttctgataaaagatatatggtattctgtcagATCAAATGGATTTGTCCAACTGCTCCTTCGCGTCCTGTTTCGCTTCTCGGTGGATTTCCTTGCACTGCCT
Basic information
species | Arabidopsis thaliana |
transcript | AT3G15650.2 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G15650.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA15G01350.1 (Glycine max), 3'ss of exon 4
-------------------------gtaaggatccatggaaacaaacttggaag-taattttttgtatcactaaatattcttagtg-aaggttctgataaaagat----------atatggtattctgt----cagATCAAATGGATTTGTCCAACTGCTCCTTCGCGTCCTGTTTCGCTTCTCGGTGGATTTCCTTGCACTGCCT
| ||| | || | | | |||| || | || ||| ||| | | | |||||| | | ||| ||||| ||| | | ||||| ||||||||||| |||||||||||| | |||||||| || | || ||||| ||||| |||||||| |
gtgagaattttatatcttcaatcagtttgagattaacttaattgcttctctaggctaatattgtcactccataactatgataactttggggttctataacatgatgtttctcacaatatgatatgatatgatgcagATAAAATGGATTTGCCCAACTGCTCCTACCCGTCCTGTGGCGATACTTGGTGGTTTTCCCTGCACTGCAT
upper sequence: AT3G15650.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA08G22420.1 (Glycine max), 3'ss of exon 3
--------------------gtaaggatccatggaaacaaacttggaagtaattttt----tgtatcactaaa--tattctta---gtgaaggttctgataaaagatatatggtattctg--tcagATCAAATGGATTTGTCCAACTGCTCCTTCGCGTCCTGTTTCGCTTCTCGGTGGATTTCCTTGCACTGCCT
| | | | ||||| | | | | || | | | |||| |||||| || | |||| | ||| || | || ||||| ||||||||||| |||||||||||| | |||||||| | | || ||||| ||| |||||||||| |
gtaagaaataaactttcctattctgcttttgtacaaacatattctcactttatccctataatattctgataaatctattctcgtgtacaaaatatatgatgtttgttatgatgtgatgtggtgcagATAAAATGGATTTGCCCAACTGCTCCTACCCGTCCTGTAACCATACTTGGTGGTTTTTCTTGCACTGCAT
upper sequence: AT3G15650.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA07G03670.2 (Glycine max), 3'ss of exon 3
----gtaaggatccatggaaacaaacttggaagtaattttttgtatcactaaatattctta-gtgaaggttctgataaaagatatatggtattctgt--cagATCAAATGGATTTGTCCAACTGCTCCTTCGCGTCCTGTTTCGCTTCTCGGTGGATTTCCTTGCACTGCCT
||| | || || | | |||| || || || | | || |||| || | |||| | ||| || | || ||||| ||||||||||| |||||||||||||| || ||||| | | || ||||| ||| |||||||||| |
ttttgtacaaacatattctcactttatcccta-taatattctg-ataaatctattctcttgtacaaaatatatgatgtttgttatgatgtgatgtggtgcagATAAAATGGATTTGCCCAACTGCTCCTTCTCGCCCTGTAACCATACTTGGTGGTTTTTCTTGCACTGCAT
upper sequence: AT3G15650.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv09s0002g06010.t01 (Vitis vinifera), 3'ss of exon 4
gtaaggatccatggaaacaaacttggaagtaattttttgtatcactaaatattcttagtgaaggttctgataaaagatatatggtattctgtcagATCAAATGGATTTGTCCAACTGCTCCTTCGCGTCCTGTTTCGCTTCTCGGTGGATTTCCTTGCACTGCCT
|||||||| | || || | |||| | | | ||| || || | || | |||| | ||||| |||||||||||||||||||||||| | ||||||||| | | ||||||||||||||||||||||| |
gtaaggatttgt--------ttttttaaattgcttttgggcttataaaacc------acaaatcttactgttcaaattctatgatg------cagATAAAATGGATTTGTCCAACTGCTCCTACTCGTCCTGTTGCAGTACTCGGTGGATTTCCTTGCACTGCAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atcactaaatattcttagtgaaggttctgataaaagatatatggtattctgtcagATCAAATGGATTTGTCCAACTGCTCCTTCGCGTCCTGTTTCGCTTCTCGGTGGATTTCCTTGCACTGCCT
ttctgtc CT-rich tract
tgataaaagatatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaggatccatggaaacaaacttggaagtaattttttgtatcactaaatattcttagtgaaggttctgataaaagatatatggtattctgtcagATCAAATGGATTTGTCCAACTGCTCCTTCGCGTCCTGTTTCGCTTCTCGGTGGATTTCCTTGCACTGCCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA