Sequence
atgc intronic sequence ATGC exonic sequencegtggtcattgttctatgatctttgaaataaactagactctataaaccctatatatatatatatatactaatatatacgtttactcacacagCTCATGCAAGCTGTGATGCAAAAAGATAGCAACCCAGATCTGGCTTTTGCTGTTGATATATGGAGTTTAGGATGTACAATCATTGAGATGTTCACTGGGA
Basic information
species | Arabidopsis thaliana |
transcript | AT5G66850.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G66850.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA05G10050.1 (Glycine max), 3'ss of exon 6
gtggtcattgttctatgatctttgaaataaactagactctataaaccctatat-atatatatatatactaatatatacgtttactcacacagCTCATGCAAGCTGTGATGCAAAAAGATAGCAACCCAGATCTGGCTTTTGCTGTTGATATATGGAGTTTAGGATGTACAATCATTGAGATGTTCACTGGGA
||| | || | | || || || ||| || | | | || | ||||| | | || |||| |||||| |||| |||||||| ||||| |||| || ||| ||||| ||||||||| ||||||| |||||||| || ||||| |||||||| |||||||||||||
------------gtatagtttt---actctacattaccctgtaatgtctgtctcgcacattcct-cactaacacttcgatt--ctcatacagCTTTTGCAGGCTGTGATACAAAAGGATAACAGCCCTGATCTTGCTTTTGCTATTGATATTTGGAGTTTGGGTTGTACCATCATTGAAATGTTCACTGGGA
upper sequence: AT5G66850.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA17G20460.1 (Glycine max), 3'ss of exon 8
gtggtcattgttctatgatctttgaaataaactagactctataaaccctatat-atatatatatatactaatatatacgtttactcacacagCTCATGCAAGCTGTGATGCAAAAAGATAGCAACCCAGATCTGGCTTTTGCTGTTGATATATGGAGTTTAGGATGTACAATCATTGAGATGTTCACTGGGA
||| |||| | | || || || ||| | || | | | || | ||||| | | || |||| |||||| |||| |||||||| ||||| |||| || ||| ||||| ||||||||| ||||||| |||||||| || ||||| |||||||| |||||||||||||
------------gtatattctt---actctacattaccctgtaatgtccatctcacacattcct-cactaacacctcaatt--ctcatacagCTTTTGCAGGCTGTGATACAAAAGGATAACAGCCCTGATCTTGCTTTTGCTATTGATATTTGGAGTTTGGGTTGTACCATCATTGAAATGTTCACTGGGA
upper sequence: AT5G66850.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA01G39070.1 (Glycine max), 3'ss of exon 9
gtggtcattgttctatgatctttgaaataaactagactctataaaccctatatatatatatatatactaatatatacgtttactcacacagCTCATGCAAGCTGTGATGCAAAAAGATAGCAACCCAGATCTGGCTTTTGCTGTTGATATATGGAGTTTAGGATGTACAATCATTGAGATGTTCACTGGGA
| | | | || || | | |||| | | || || | | | || | | | || || ||||||||||| | ||||| | |||||||||||| || | | || || ||||||||||||||||| |||||||| || |||||||| ||||| |||||||| ||||
-------gtatatactaagtttataactctatattactccacgatgtct-catgcgt---tctctattgacactta---tttctcacacagCTTTTTCAAGCGGGTGTGCAAAAAGATAACAGCTCTGACCTAGCTTTTGCTGTTGATATTTGGAGTTTGGGTTGTACAATTATTGAAATGTTCACCGGGA
upper sequence: AT5G66850.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA11G06200.1 (Glycine max), 3'ss of exon 10
gtggtcattgttctatgatctttgaaataaactagactctataaaccctatatatatatatatatactaatatatacgtttactcacacagCTCATGCAAGCTGTGATGCAAAAAGATAGCAACCCAGATCTGGCTTTTGCTGTTGATATATGGAGTTTAGGATGTACAATCATTGAGATGTTCACTGGGA
|| | | | | || || | | || ||| | | || || | | | |||| | ||| | | | || ||||| | ||||| || |||||||||||| || | | || || ||||| ||||||||||| |||||||| || |||||||| ||||| |||||||| ||||
---gtatatactaattaagtttataactctatta--ctccacgatgtct-catgcgt-tctctatagacacttattc-ctcatacatgcagCTTTTTCAAGCGGTTGTGCAAAAAGATAACAGCTCTGACCTTGCTTTCGCTGTTGATATTTGGAGTTTGGGTTGTACAATTATTGAAATGTTCACGGGGA
upper sequence: AT5G66850.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv00s1194g00010.t01 (Vitis vinifera), 3'ss of exon 6
gtggtcattgttctatgatctttgaaataaactagactctataaaccctatatatatatatatatactaatatatacgtttactcacacagCTCATGCAAGCTGTGATGCAAAAAGATAGCAACCCAGATCTGGCTTTTGCTGTTGATATATGGAGTTTAGGATGTACAATCATTGAGATGTTCACTGGGA
| || | | | || | || | ||| || | |||| || || || || | || || | || ||||||||||||||||||||||| |||||| | | ||||| || ||||||||||||||||||||||| || ||||| || ||||| ||| | | ||| |
------------gtgtgttataggtgctacatta-attctttataatctatg-gcattccta-attctgacatcattgtct-ttctggcagCTCATGCAAGCTGTGATGCAGAAAGATCATAGTTCTGATCTTGCCTTTGCTGTTGATATATGGAGTTTGGGTTGTACTATTATTGAAATGCTGAATGGAAMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|47831783|gb|CK121467.1|CK121467EST: AAAGAGCTGATCTCTCGTTAAAGGGAAGCCCGTACTGGATGGCACCAGAG CTCATGCAAGCTGTGATGCAAAAAGATAGCAACCCAGATCTGGCTTTTGCT
genomic: AAAGAGCTGATCTCTCGTTAAAGGGAAGCCCGTACTGGATGGCACCAGAGgtggtcattg ... actcacacagCTCATGCAAGCTGTGATGCAAAAAGATAGCAACCCAGATCTGGCTTTTGCT
EST:
gi|86058391|gb|DR354148.1|DR354148EST: AAAGAGCTGATCTCTCGTTAAAGGGAA-CCCGTACTGGATGGCACCAGAG CTCATGCAAGCTGTGATGCAAAAAGATAGCA-CCCAGATCTGGCTTTTGCT
genomic: AAAGAGCTGATCTCTCGTTAAAGGGAAGCCCGTACTGGATGGCACCAGAGgtggtcattg ... actcacacagCTCATGCAAGCTGTGATGCAAAAAGATAGCAACCCAGATCTGGCTTTTGCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctctataaaccctatatatatatatatatactaatatatacgtttactcacacagCTCATGCAAGCTGTGATGCAAAAAGATAGCAACCCAGATCTGGCTTTTGCTGTTGATATATGGAGTTTAGGATGTACAATCATTGAGATGTTCACTGGGA
tactcac putative branch site (score: 1)
tttactc CT-rich tract
tatatatatatatata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtggtcattgttctatgatctttgaaataaactagactctataaaccctatatatatatatatatactaatatatacgtttactcacacagCTCATGCAAGCTGTGATGCAAAAAGATAGCAACCCAGATCTGGCTTTTGCTGTTGATATATGGAGTTTAGGATGTACAATCATTGAGATGTTCACTGGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG