Sequence
atgc intronic sequence ATGC exonic sequenceGTGAAGAAAGTGAGGCCACATGTTCTTCTTGGTTTATCTGGAGTTGGTGGTATCTTTAATGAAGAAgtatgtgactttcttagacaacaaatagtttcaagaagtatgaattttaactgttttacttatatcgttaactggtttcaatcatcaaag
Basic information
species | Arabidopsis thaliana |
transcript | AT4G00570.1 |
intron # | 12 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G00570.1 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: GLYMA03G01680.1 (Glycine max), 5'ss of exon 13
GTGAAGAAAGTGAGGCCACATGTTCTTCTTGGTTTATCTGGAGTTGGTGGTATCTTTAATGAAGAAgtatgtgactttcttagacaacaaatagtttcaagaagtatgaattttaactgttttactta-tatcgttaactggtttcaatcatcaaag----------------------------------------------------------
|| ||||| | ||||||||||| || |||||||| ||||| ||||||||||| || ||||| || ||| | || |||| | | |||| | ||| | ||| | || || || | | || || || | |
GTTAAGAAGATTAGGCCACATGTGCTCCTTGGTTTGTCTGGCGTTGGTGGTATTTTCAATGAGGAGgtaact-accttctactata-taaattctatcatgtcatatc--cctcaataattatattaaataataatagacatctttgacagctttggtactgtgagcttttctgtaattgaatttcttaattttaatggttgagattcgactcag
upper sequence: AT4G00570.1 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: GLYMA07G08110.1 (Glycine max), 5'ss of exon 12
GTGAAGAAAGTGAGGCCACATGTTCTTCTTGGTTTATCTGGAGTTGGTGGTATCTTTAATGAAGAAgtatgtgactttcttagacaacaaatagtttcaagaagtatgaattttaactgttttacttatatcgttaactggtttcaa--tcatcaaag-----------------------------------------------------------------
|| ||||| | ||||||||||| || |||||||| ||||| ||||||||||| || ||||| || ||| | ||| || | | || | ||| | | || | | || || || ||| || | | || | ||
GTTAAGAAGATTAGGCCACATGTGCTCCTTGGTTTGTCTGGCGTTGGTGGTATTTTCAATGAGGAGgtaattaccttctatataaattctatcatgtcacatccctcaa---tgaattatgttcaataaataaataaatgcaatagacatctttgaaagctttggtagtatgaacttttctgcaattgaatttcttaattttaatggttgaggttcaactcag
upper sequence: AT4G00570.1 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: Vv15s0046g03670.t01 (Vitis vinifera), 5'ss of exon 12
GTGAAGAAAGTGAGGCCACATGTTCTTCTTGGTTTATCTGGAGTTGGTGGTATCTTTAATGAAGAAgtatgtgactttct---tagacaacaaatagtttcaagaagtat----gaattttaactg-ttttacttatatcgttaactggtttcaatcatcaaag----
|| || || || | || ||||| ||||||||||| ||||||||||||||| |||| ||||| || || | | ||| | | | || ||| || ||| || | || || ||||| ||| | | | ||| | | || | ||
GTTAAAAAGGTTAAACCCCATGTGCTTCTTGGTTTGTCTGGAGTTGGTGGTGTCTTCAATGAGGAGgtgggcatccctctagtttgtttctatatctttttaaagcatattaaaaaagtgaaattgattttatctatttgg--acctgcatgctatattgctagttgtMapped 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|116463393|gb|EG505985.1|EG505985EST: CACATGCTCTTCTTGGTTTATCTGGAGTTGGTGGTATCTTTAATGAAGAA GTTCTCAAGGCGATGCGAGAATCTGACTCATGCAAGCCTGCCATTTTTGCC
genomic: CACATGTTCTTCTTGGTTTATCTGGAGTTGGTGGTATCTTTAATGAAGAAgtatgtgact ... atcatcaaagGTTCTCAAGGCGATGCGAGAATCTGACTCATGCAAGCCTGCCATTTTTGCC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTGAAGAAAGTGAGGCCACATGTTCTTCTTGGTTTATCTGGAGTTGGTGGTATCTTTAATGAAGAAgtatgtgactttcttagacaacaaatagtttcaagaagtatgaattttaactgttttacttatatcgttaactggtttcaatcatcaaag
- - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA