Sequence
atgc intronic sequence ATGC exonic sequenceAGTGTACTTTGGTTGGGCAGGCTTGGCAAAGAGAGGTGTCTTTAAAATGGTCATGAGCATTGGTTGGAATCCTTATTTCAATAACAAGGAGAAAACTATTgtgagttcataaaaagttcaaacaaaattcttactccagtggttgcttctttaactttagcttttgttatatag
Basic information
species | Arabidopsis thaliana |
transcript | AT4G21470.1 |
intron # | 8 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G21470.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: LOC_Os10g32730.1 (Oryza sativa), 5'ss of exon 9
AGTGTACTTTGGTTGGGCAGGCTTGGCAAAGAGAGGTGTCTTTAAAATGGTCATGAGCATTGGTTGGAATCCTTATTTCAATAACAAGGAGAAAACTATTgtgagt-----tcataaaaagttcaaacaaaattcttactccagtg-gttgcttctttaactttagcttttgttatatag
|| |||||||| ||||| || | ||| | ||||| | ||||| ||||||||||||||||| ||||| |||||||| |||||| |||||| |||||||||||| ||| | | | || || |||| |||| || || || | || || | |
GGTATACTTTGGCTGGGCTGGACTTTCAACGCGAGGTATATTTAAGATGGTCATGAGCATTGGCTGGAACCCTTATTTTGATAACACGGAGAAGACTATTgtgagtgtttctcaatacatcccctttcatgtttagtacttcagtatattagtttattctaaaagacattggtcacag--
upper sequence: AT4G21470.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: LOC_Os10g14814.1 (Oryza sativa), 5'ss of exon 8
AGTGTACTTTGGTTGGGCAGGCTTGGCAAAGAGAGGTGTCTTTAAAATGGTCATGAGCATTGGTTGGAATCCTTATTTCAATAACAAGGAGAAAACTATTgtgagt-----tcataaaaagttcaaacaaaattcttactccagtg-gttgcttctttaactttagcttttgttatatag
|| |||||||| ||||| || | ||| | ||||| | | ||| ||||||||||||||||| ||||| |||||||| |||||| |||||| |||||||||||| ||| | | | || || ||| |||| || || || | | ||| ||
GGTATACTTTGGCTGGGCTGGACTTTCAACGCGAGGTATATATAAGATGGTCATGAGCATTGGGTGGAACCCTTATTTTGATAACACGGAGAAGACTATTgtgagtgtttctcaatacagccccttccatgtttagtacctcagtatattagtttattctaaaagacatcggttgtag--
upper sequence: AT4G21470.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA08G06330.1 (Glycine max), 5'ss of exon 3
AGTGTACTTTGGTTGGGCAGGCTTGGCAAAGAGAGGTGTCTTTAAAATGGTCATGAGCATTGGTTGGAATCCTTATTTCAATAACAAGGAGAAAACTATTgtgagt-tcata----aaaagttcaaacaaaattcttactccagtggttgcttctttaactttagcttttgttatatag
||| || |||| |||||| || ||| || |||||||| ||||||||||| ||||||||||||||||||||||||||||| ||||| ||||| ||||| || ||| | || | | | || | | || | | || ||| | || | | | | || ||| | | |||
AGTTTATTTTGATTGGGCTGGATTGTCAGCCAGAGGTGTTTTTAAAATGGTGATGAGCATTGGTTGGAATCCTTATTTCAACAACAAAGAGAAGACTATAgtaagtgttttactgcacacctccagatataactact-tgcctgtgaatttttgtattatctatgcctttttgttgtag
upper sequence: AT4G21470.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA07G30970.1 (Glycine max), 5'ss of exon 8
AGTGTACTTTGGTTGGGCAGGCTTGGCAAAGAGAGGTGTCTTTAAAATGGTCATGAGCATTGGTTGGAATCCTTATTTCAATAACAAGGAGAAAACTATTgtgagt----tcataaaaagttcaaacaaaattcttactccagtggttgcttctttaactttagcttttgttatatag
|| || ||||||||||| || ||| | |||||||| ||||||||||| |||||||||||||||||||| |||||||| ||||| || || |||| || ||| | || | | || | | | | | || || | | | | | | || ||| | | ||
TGTTTATTTTGGTTGGGCTGGATTGTCGGCAAGAGGTGTTTTTAAAATGGTGATGAGCATTGGTTGGAATCCATATTTCAACAACAAAGAAAAGGCTATAgtaagtgctttattatatacctccagctataactatttacctatgaattttcatattatctatgcctttttgtttcag
upper sequence: AT4G21470.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: Vv00s0181g00140.t01 (Vitis vinifera), 5'ss of exon 9
AGTGTACTTTGGTTGGGCAGGCTTGGCAAAGAGAGGTGTCTTTAAAATGGTCATGAGCATTGGTTGGAATCCTTATTTCAATAACAAGGAGAAAACTATTgtgagttca--taaaaagttcaaacaaaattcttactccagtggttgcttctttaactttagcttttgttatatag------
||| || || |||||||| || || |||| ||||||| || ||||| ||||||||||| |||||||| |||||||| |||| ||||||||||| |||||| || | | | || | | | | || ||| | | || | || || |
AGTATATTTCGGTTGGGCTGGATTATCAAAACAGGGTGTCTACAAGATGGTGATGAGCATTGGCTGGAATCCATATTTCAACAACACCGAGAAAACTATAgtgagtgcaacttggactgtaaaggtggaccttccaaatattttttctctctgtttttctaaatcccatt-tacaattttag
upper sequence: AT4G21470.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: Vv00s0181g00130.t01 (Vitis vinifera), 5'ss of exon 8
AGTGTACTTTGGTTGGGCAGGCTTGGCAAAGAGAGGTGTCTTTAAAATGGTCATGAGCATTGGTTGGAATCCTTATTTCAATAACAAGGAGAAAACTATTgtgagttca--taaaaagttcaaacaaaattcttactccagtggttgcttctttaactttagcttttgttatatag------
||| || || |||||||| || || |||| ||||||| || ||||| ||||||||||| |||||||| |||||||| |||| ||||||||||| |||||| || | | | || | | | | || ||| | | || | | || || |
AGTATATTTCGGTTGGGCTGGATTATCAAAACAGGGTGTCTACAAGATGGTGATGAGCATTGGCTGGAATCCATATTTCAACAACACCGAGAAAACTATAgtgagtgcaacttggactgtaaaggtggaccttccaaatattttttctctctgtttttctaaatctcatt-tacaattttagMapped 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|125311745|gb|EL325830.1|EL325830EST: AGCATTGGTTGGAATCCTTATTTCAATAACAAGGAGAAAACTATT GAACCATGGCTGCTTCACGATTTCA
genomic: AGCATTGGTTGGAATCCTTATTTCAATAACAAGGAGAAAACTATTgtgagttcat ... tgttatatagGAACCATGGCTGCTTCACGATTTCA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGTGTACTTTGGTTGGGCAGGCTTGGCAAAGAGAGGTGTCTTTAAAATGGTCATGAGCATTGGTTGGAATCCTTATTTCAATAACAAGGAGAAAACTATTgtgagttcataaaaagttcaaacaaaattcttactccagtggttgcttctttaactttagcttttgttatatag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA