Sequence
atgc intronic sequence ATGC exonic sequence...acaagtaactatacatcaatagcatctgaaaattagctcaactgtacaacaggtaccattttttactctctttgactaaaacagtttttgatgtcctcagGTAAGGTTGGAGGGTTTCTCGCATCAATTCCGCAAGTCATGGTTGCTTCTCTTCTGTGCTTCATGTGGGCAATGTTTACGGCTTTAGGTCTTTCCAACTT
Basic information
species | Arabidopsis thaliana |
transcript | AT2G27810.1 |
intron # | 8 |
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 8
lower sequence: GLYMA17G05280.1 (Glycine max), 3'ss of exon 8
acaagtaactatacatcaatagcatctgaaaattagctcaactgtacaacaggtaccattttttactctctttg--actaaaacagtttttgatgtcct---cagGTAAGGTTGGAGGGTTTCTCGCATCAATTCCGCAAGTCATGGTTGCTTCTCTTCTGTGCTTCATGTGGGCAATGTTTACGGCTTTAGGTCTTTCCAACTT
|| || | || | ||| | ||| | |||| | || |||||| | | | || | |||| ||| || ||||||||||||||||||| | || |||||||| |||| ||||||||| ||| || ||||| |||||||||||| || | || || || | || || |
---ggtttttaga-gtctttctcatgtctctattgcaatttgtactcaactg-tagaatttttcatgcaaataaaaacatgtttaattttacttgtactggacagGTAAGGTTGGAGGGTTCATTGCTTCAATTCCCGAAGTAATGGTTGCTGGTCTCCTATGCTTTATGTGGGCAATGCTTGCAGCATTGGGCTTGTCTAATCT
upper sequence: AT2G27810.3 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA11G19420.1 (Glycine max), 3'ss of exon 8
acaagtaactatacatcaatagcatctgaaaattagctcaactgtacaacaggtaccattttttactct--ctttgactaaaacagtttttgatgtcct-cagGTAAGGTTGGAGGGTTTCTCGCATCAATTCCGCAAGTCATGGTTGCTTCTCTTCTGTGCTTCATGTGGGCAATGTTTACGGCTTTAGGTCTTTCCAACTT
| | | | || || | | || ||| | | || | | || || | | | | | || ||| | || || | | |||||||||||||||| || | || |||||||| |||||||||||||| ||| || ||||| |||||||||||| | || || ||||| | || || |
--agcttctcttgttcccatttgatat-agttttgtctctcgtctgtaaaaagctcctcttgtaaatttatccgtgtttaattttgcttatgccatacaacagGTAAGGTTGGAGGATTCATTGCTTCAATTCCCAAAGTCATGGTTGCTGGTCTCCTCTGCTTTATGTGGGCAATGCTCACAGCATTAGGATTGTCTAATCT
upper sequence: AT2G27810.3 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA12G30670.1 (Glycine max), 3'ss of exon 8
acaagtaactatacatcaatagcatctgaaaattagctcaactgtacaacaggtaccattttttactctctttg--actaaaacagtttttgatgtcct---cagGTAAGGTTGGAGGGTTTCTCGCATCAATTCCGCAAGTCATGGTTGCTTCTCTTCTGTGCTTCATGTGGGCAATGTTTACGGCTTTAGGTCTTTCCAACTT
|| || | || | ||| | || | |||| | || |||||| | | | || | |||| ||| || ||||||||||||||||||| | || |||||||| |||||||||||||| ||| || ||||| |||||||| ||| || | || || || | ||||| |
---ggtttttaga-gtctttcccatgtctctgttgcaatctgtactcaactg-tagaatttttcatgcaaataaaaacatgtttaattttacttgtactggacagGTAAGGTTGGAGGGTTCATTGCTTCAATTCCTGAAGTCATGGTTGCTGGTCTCCTATGCTTTATGTGGGCTATGCTTGCAGCATTGGGCTTGTCCAATCT
upper sequence: AT2G27810.3 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA12G09060.1 (Glycine max), 3'ss of exon 8
acaagtaactatacatcaatagcatctgaaaattagctcaactgtacaacaggtaccattttttactctctttgactaaaacagtttttgatgtcct-cagGTAAGGTTGGAGGGTTTCTCGCATCAATTCCGCAAGTCATGGTTGCTTCTCTTCTGTGCTTCATGTGGGCAATGTTTACGGCTTTAGGTCTTTCCAACTT
| | | | || || | | || ||| | | || | || | | || || ||| | || || | | |||||||||||||||| || | || |||||||| |||||||||||||| ||| || ||||| |||||||||||| | || || ||||| | || || |
tcggcttctcttgttcccatttgatat-agttttgcctcttgtctgtaaaaaactccttgcaaatttatccatgtttaattttgcttatgccatacaacagGTAAGGTTGGAGGATTCATTGCTTCAATTCCCGAAGTCATGGTTGCTGGTCTCCTCTGCTTTATGTGGGCAATGCTCACAGCATTAGGCTTGTCAAATCT
upper sequence: AT2G27810.3 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: Vv06s0061g01310.t01 (Vitis vinifera), 3'ss of exon 8
acaagtaactatacatcaatagcatctgaaaattagctcaactgtacaacaggtaccattttttactctctttgactaaaacagtttttgat---gtcctcagGTAAGGTTGGAGGGTTTCTCGCATCAATTCCGCAAGTCATGGTTGCTTCTCTTCTGTGCTTCATGTGGGCAATGTTTACGGCTTTAGGTCTTTCCAACTT
| | | | || ||| | | || | | | || | | | | |||| || | || | | || | ||| || || | ||||||| |||||||||||| | || |||||||| |||||||||||||| |||| ||||||||||||||||||||| || | || || || | || || ||
-cctttcattg-acttcataaaggtatggaggtctctacttctctgctatcc-tttaatttattgcccttcaaggcctaatctcatttcaatcatgttcacagGTAAAGTTGGAGGGTTTATTGCTTCAATTCCTGAAGTCATGGTTGCTGCTCTCCTGTGCTTCATGTGGGCAATGCTTGCAGCATTGGGGTTGTCAAATTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acaacaggtaccattttttactctctttgactaaaacagtttttgatgtcctcagGTAAGGTTGGAGGGTTTCTCGCATCAATTCCGCAAGTCATGGTTGCTTCTCTTCTGTGCTTCATGTGGGCAATGTTTACGGCTTTAGGTCTTTCCAACTT
tgtcctc CT-rich tract
attttttact 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
acaagtaactatacatcaatagcatctgaaaattagctcaactgtacaacaggtaccattttttactctctttgactaaaacagtttttgatgtcctcagGTAAGGTTGGAGGGTTTCTCGCATCAATTCCGCAAGTCATGGTTGCTTCTCTTCTGTGCTTCATGTGGGCAATGTTTACGGCTTTAGGTCTTTCCAACTT
-caagtaa
- - - - - - acatcaa
- - - - - - - - - - - - -ctgaaaa
- - - - - - - - - - - - - - - - - - ctcaact
- - - - - - - - - - - - - - - - - - - - - - -acaacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctaaaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gtttttg