Sequence
atgc intronic sequence ATGC exonic sequencegtatacatctctgagtttgtcctatttgctgttttgtttacacatggttgttgtggctttgtgtggtgcagtattaacttgtattcataattctcttgaccttctgtatagGTTGGTCAATCCAGTAGTTGTTGCTCCGACGGTAGCTGCAGTTGGACTTTCCTTTTACAGCTATGGTTTCCCGCTTGTTGGTAAATGTCTTGAGATCGGT
Basic information
species | Arabidopsis thaliana |
transcript | AT2G27810.2 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G27810.3 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA12G09060.1 (Glycine max), 3'ss of exon 4
gtatacatctctgagtttgtcctatttgctgttttgtttacacatggttgttgtggctttgtgtggtgcagtattaacttgtattcataattctcttgaccttctgtatagGTTGGTCAATCCAGTAGTTGTTGCTCCGACGGTAGCTGCAGTTGGACTTTCCTTTTACAGCTATGGTTTCCCGCTTGTTGGTAAATGTCTTGAGATCGGT
|||||| || | || | ||||| | | | |||| ||| || | | | | | | ||| | | | || || || ||| ||||||| |||||| | | || || | ||||||||||||||||| || ||||| ||||||||||| | ||||||| |||| |||||||||||
-------tctctgccgcagt--tgactgaaataaaaacatcacatttcagatcttactttctgttcagcgtagctga-taatgagcgtcattttatgtgtttcct-tacagATTGATCAATCCTGTAGTTATATCCCCAACTATTGCTGCAGTTGGACTTTCATTCTACAGTTATGGTTTCCCATTAGTTGGTACATGTATTGAGATCGGT
upper sequence: AT2G27810.3 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA12G30670.1 (Glycine max), 3'ss of exon 4
gtatacatctctgagttt--gtcctatttgctgttttgtttacacatggttgttgtggctttgtgtggtgcagtattaacttgtattcataattctcttgaccttctgtatagGTTGGTCAATCCAGTAGTTGTTGCTCCGACGGTAGCTGCAGTTGGACTTTCCTTTTACAGCTATGGTTTCCCGCTTGTTGGTAAATGTCTTGAGATCGGT
| | | | |||| | ||| || | | || | ||| | ||| ||| || || || || | | | ||| | ||| | ||| |||||| ||||||| || ||||| | || || | |||||||| |||||||| ||||||||||||||||| || || ||||||| |||||| ||||| |||
--gaatacccccgagtcccagatgtatccactttatggtgattaaatgactagtgt----ttgagttgtttgaaataaaaatat-tacatg-tcatctgaattttc-----agGTTGATCAATCCTGTGGTTGTATCCCCAACTATTGCTGCAGTAGGACTTTCATTTTACAGCTATGGTTTTCCACTAGTTGGTACATGTCTGGAGATTGGT
upper sequence: AT2G27810.3 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA11G19420.1 (Glycine max), 3'ss of exon 4
gtatacatctctgagtttgtcctatttgctgttttgtttacacatggttgttgtggctttgtgtggtgcagtattaacttgtattcataattctcttgaccttctgtatagGTTGGTCAATCCAGTAGTTGTTGCTCCGACGGTAGCTGCAGTTGGACTTTCCTTTTACAGCTATGGTTTCCCGCTTGTTGGTAAATGTCTTGAGATCGGT
||| || | || | ||||| | | | |||| ||| | | | | | | || | || ||| || ||| || ||||||| |||||| | | || || | ||||||||||||||||| || ||||| ||||| ||||| | ||||||| |||| |||||||||||
---------actgccacagt--tgactggaataaaaacatcacatttcagatcttactttctgttcagtgtagctgataatgagcctcattttttatgtgtttccttacagGCTGATCAATCCTGTAGTTATATCCCCAACTATTGCTGCAGTTGGACTTTCATTCTACAGTTATGGCTTCCCATTAGTTGGTACATGTATTGAGATCGGT
upper sequence: AT2G27810.3 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: Vv06s0061g01310.t01 (Vitis vinifera), 3'ss of exon 4
gtatacatctctgagtttgtcctatttgctgttttgtttacacatggttgttgtggctttgtgtggtgcagt-attaacttgtattcataattctcttgaccttctgtatagGTTGGTCAATCCAGTAGTTGTTGCTCCGACGGTAGCTGCAGTTGGACTTTCCTTTTACAGCTATGGTTTCCCGCTTGTTGGTAAATGTCTTGAGATCGGT
| | |||| | || ||| |||| || ||| || | || | || | | || | || | ||| ||| ||| | | || | |||||| | ||||| || ||||| | || || | ||||| ||||||||||||||||| || |||||||| || | ||||||| ||||||||||| |||
-----tggccttcagttgattctcttt--cattttatt-gcac-caagtgatatgcttatggtgcatatacccatcatctcatcttct--gttcatttg-catccttttcagGTTGATTAATCCTGTGGTTGTGTCCCCAACTATTGCTGCTGTTGGACTTTCCTTTTATAGTTATGGTTTTCCACAAGTTGGTACTTGTCTTGAGATTGGT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctttgtgtggtgcagtattaacttgtattcataattctcttgaccttctgtatagGTTGGTCAATCCAGTAGTTGTTGCTCCGACGGTAGCTGCAGTTGGACTTTCCTTTTACAGCTATGGTTTCCCGCTTGTTGGTAAATGTCTTGAGATCGGT
ttctcttgaccttct CT-rich tract
tattaacttgtattca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatacatctctgagtttgtcctatttgctgttttgtttacacatggttgttgtggctttgtgtggtgcagtattaacttgtattcataattctcttgaccttctgtatagGTTGGTCAATCCAGTAGTTGTTGCTCCGACGGTAGCTGCAGTTGGACTTTCCTTTTACAGCTATGGTTTCCCGCTTGTTGGTAAATGTCTTGAGATCGGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC