Sequence
atgc intronic sequence ATGC exonic sequenceAAACAAAGAAATCTCCAGGATGTCTTTTCTGATGCTCGGTCTAGATTTGCCACCGCCTCCTCTTTTCAAAGATGTCATGGAGAAAAACATTATTCCGCAGgtatatggctatttcaaatcttgaacgtcttgctactctgtgccatttgaaaaatgcatttcagtaaggggaacattttgatcaataagataacgtgaag...
Basic information
species | Arabidopsis thaliana |
transcript | AT4G22410.1 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G22410.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GRMZM2G091151_T01 (Zea mays), 5'ss of exon 6
AAACAAAGAAATCTCCAGGATGTCTTTTCTGATGCTCGGTCTAGATTTGCCACCGCCTCCTCTTTTCAAAGATGTCATGGAGAAAAACATTATTCCGCAGgtatatggctatttcaaat-cttgaacgtcttgctactctgtgccatttgaaaaatgcatttcagtaaggggaacattttgatca--ataagataacgtgaag
| |||| |||| | | | || |||||||||||||| || ||||||| || |||||||||||||| | |||||||||||| || ||||| ||||||| | || | ||| | || | ||| | | | || | ||| | | | | | | | || | || |||| | | |
TGTTACTGAAACATCCAAGGTCCCATTCCTGATGCTCGGTCTTGACCTGCCACCTCCACCTCTTTTCAAAGACGCCATGGAGAAAAATATCATTCCACAGgtatgt--ctttcacaagcacatgcatagtttggtggt-tatgatctcatgtggatgtttagttttgatgcttatagtaagactaggatgagatggtgggctg
upper sequence: AT4G22410.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA13G22190.1 (Glycine max), 5'ss of exon 7
AAACAAAGAAATCTCCAGGATGTCTTTTCTGATGCTCGGTCTAGATTTGCCACCGCCTCCTCTTTTCAAAGATGTCATGGAGAAAAACATTATTCCGCAGgtatatggctatttcaaatcttgaacgtcttgctactctgtgccatttgaaaaatgcatttcagtaaggggaacattttga----tcaataagataacgtgaag--
|||||||| || | ||| | ||||| ||| | || | || |||||||| |||||||||||||| ||||| ||||| ||||| || || || |||||| ||| | ||| | |||| | | | ||| || | | || | | || | ||||| | ||| | | | |
TGTCAAAGAAACTTCAAAAATGCCATTTCTAATGTTAGGGTTGGACTTGCCACCACCTCCTCTTTTCAAGGATGTGATGGAAAAAAATATAATACCACAGgtactactctactc--aatgctactgtgcttgttgca-tatgcgatattgtagttga---tgattagataatttactttgaagtttgaatcttgttatttttggct
upper sequence: AT4G22410.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA10G08500.2 (Glycine max), 5'ss of exon 7
AAACAAAGAAATCTCCAGGATGTCTTTTCTGATGCTCGGTCTAGATTTGCCACCGCCTCCTCTTTTCAAAGATGTCATGGAGAAAAACATTATTCCGCAGgtatatggctatttcaaa-tcttgaacgtcttgc---tactctgtgccatttgaaaaatgcatttcagtaaggggaacattttgatcaataagataacgtgaag
|||||||| || | ||| | ||||| ||| | || | || |||||||| |||||||||||||| ||||| ||||| ||||| || || || |||||| ||| || | | || | | |||| | | | | |||| | | | || | | | | || | | | | |
TGTCAAAGAAACTTCAAAAATGCCATTTCTAATGTTAGGATTGGACTTGCCACCACCTCCTCTTTTCAAGGATGTGATGGAAAAAAATATAATACCACAGgtactactctacttaatgctactgtgcttgttgcatatgagatattgtagttgatgattataattta-cattgaggtgatcctactttgaagtttgaatct---
upper sequence: AT4G22410.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv00s2580g00010.t01 (Vitis vinifera), 5'ss of exon 2
AAACAAAGAAATCTCCAGGATGTCTTTTCTGATGCTCGGTCTAGATTTGCCACCGCCTCCTCTTTTCAAAGATGTCATGGAGAAAAACATTATTCCGCAGgtatatggctatttcaaatcttgaacgtcttgctactc-tgtgccatttgaaaaatgcatttcagtaaggggaacattttgatcaata--agataacgtgaag
| | |||| | || ||| | || | ||||| || | || |||||||| || |||||||| |||||||| ||||||||||| || || |||||||| || | || | | || || | || ||| | | ||| | |||| |||| | ||| || || ||
TATCTTGGAAACTTGTAGAATGCCGTTCTTAATGCTTGGATTGGACTTGCCACCACCACCTCTTTTTAAAGATGTGATGGAGAAAAATATCATACCGCAGgtcaccctcttgtcaccgcttttataattttagtattgatggaaagttttcaggaaacatgac-gtaaattttg-atttcaacgaattttggaaaaggttgg-
upper sequence: AT4G22410.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: EFJ24931 (Selaginella moellendorffii), 5'ss of exon 6
AAACAAAGAAATCTCCAGGATGTCTTTTCTGATGCTCGGTCTAGATTTGCCACCGCCTCCTCTTTTCAAAGATGTCATGGAGAAAAACATTATTCCGCAGgtatatggctatttcaaatcttgaacgtcttgctactctgtgccatttgaaaaatgcatttcagtaaggggaacattttgatcaataagataacgtgaag
||| ||| || |||| || | ||||||||||| || || ||| | || || ||||| ||||| ||||||||||||||||||||||| || || |||||||||| | || |||| | || | ||| |||| |
TAACCGAGAGATTAGCAGGCTGCCATTTCTGATGCTTGGACTCGATCTACCCCCACCTCCACTTTTTAAAGATGTCATGGAGAAAAACATCATCCCACAGgtatatgaccatgtcaatctct-----cctgattgctcacgctcattcttgtag----------------------------------------------
upper sequence: AT4G22410.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: EFJ30204 (Selaginella moellendorffii), 5'ss of exon 6
AAACAAAGAAATCTCCAGGATGTCTTTTCTGATGCTCGGTCTAGATTTGCCACCGCCTCCTCTTTTCAAAGATGTCATGGAGAAAAACATTATTCCGCAGgtatatggctatttcaaatcttgaacgtcttgctactctgtgccatttgaaaaatgcatttcagtaaggggaacattttgatcaataagataacgtgaag
||| ||| || |||| || | ||||||||||| || || ||| | || || ||||| ||||| ||||||||||||||||||||||| || || |||||||||| || |||| | | ||||| || |
TAACCGAGAGATTAGCAGGCTGCCATTTCTGATGCTTGGACTCGATCTACCCCCACCTCCACTTTTTAAAGATGTCATGGAGAAAAACATCATCCCACAGgtatatgaacatgtcaatctctc--ctgattgctgacgcacattcttgtag-------------------------------------------------Mapped 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|124863915|gb|EH948352.1|EH948352EST: CACCGCCTCCTCTTTTCAAAGATGTCATGGAGAAAAACATTATTCCGCAG GTTGCTCTATTTGATTTATTGAAGAAGTT
genomic: CACCGCCTCCTCTTTTCAAAGATGTCATGGAGAAAAACATTATTCCGCAGgtatatggct ... tttgggtcagGTTGCTCTATTTGATTTATTGAAGAAGTT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AAACAAAGAAATCTCCAGGATGTCTTTTCTGATGCTCGGTCTAGATTTGCCACCGCCTCCTCTTTTCAAAGATGTCATGGAGAAAAACATTATTCCGCAGgtatatggctatttcaaatcttgaacgtcttgctactctgtgccatttgaaaaatgcatttcagtaaggggaacattttgatcaataagataacgtgaag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA