Sequence
atgc intronic sequence ATGC exonic sequencegtttgttgctgttatgcttgtttgctgcttttgtgtccagtttaatatattgactattgggtgcaggaaaaaactgatatatatatatattgatgttgtagGCACTTCTTGCTTATGGGCTCAGTAGCTCAAGGCGTGCCCCAGATGCTCTTCATCC
Basic information
species | Arabidopsis thaliana |
transcript | AT1G51610.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G51610.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA08G23740.1 (Glycine max), 3'ss of exon 3
-----gtttgttgctgttatgcttgtttgctgcttttgtgtccagtttaatatattgacta-ttgggtgcaggaaaaaactgatatata-tatat-attgatgttgtagGCACTTCTTGCTTATGGGCTCAGTAGCTCAAGGCGTGCCCCAGATGCTCTTCATCC
||| ||| ||| || | ||| | | || | | |||| || | | | | | |||||| || | | || | | || ||||||||||| ||||||||||| | |||||| |||||||| ||||||||| |||||||
gttcattttcacctcattagccttacttcattcttattt-tcaactcctatattttaccaaactaatcaaaacgagaaactggcatgtgctgcatgacttattttgtagGCACTACTTGCTTATGGTTTATCTAGCTCGAGGCGTGCACCAGATGCTATTCATCC
upper sequence: AT1G51610.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv09s0054g00220.t01 (Vitis vinifera), 3'ss of exon 3
--------------------gtttgt--tgctgttatgcttgtttgctgcttttgtgtccagtt----taatatattgactattgggtgcaggaaaaaactgatatatatatatattgatgttgtagGCACTTCTTGCTTATGGGCTCAGTAGCTCAAGGCGTGCCCCAGATGCTCTTCATCC
||| | | ||| || ||| | | | || |||| | || || | || | | ||||| ||||| | ||||| ||| | |||| | ||||||| |||||||| ||||| || ||||||||||||||||| ||||||||| | || ||
gtactcctgttagtctaattgttcatcttcctgacattcttatcttttactcttgtttacatttgtgttgattttgtagttattgaatgcag--agaaactaataca------tattcacaatgtagGCTCTTCTTGCATATGGTCTGAGTAGCTCAAGGCGTGCTCCAGATGCTATCCACCC
upper sequence: AT1G51610.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: EFJ15192 (Selaginella moellendorffii), 3'ss of exon 3
gtttgttgctgttatgcttgtttgctgcttttgtgtccagtttaatatattgactattgggtgcaggaaaaaactgatatatatatatattgatgttgtagGCACTTCTTGCTTATGGGCTCAGTAGCTCAAGGCGTGCCCCAGATGCTCTTCATCC
|| | | ||| | || |||| || || | | || || || ||| | ||||| ||||| ||| ||||||| |||||| |||||||||||||||||
---------------------------------------gtctcgtgaatt---ttctgatagcagccttttgcttatccaga-atgatttttctttccagGGTTTGCTTGCGTATGGTCTCGTCAGCTCAAAGCGTGCTCCAGATGCTCTTCATCCMapped 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|116466669|gb|EG509261.1|EG509261EST: ATGTCATAATGGCTGAAGTAGTTCACTCCGTAGCTGATTTTGCTAACCAG GCACTTCTTGCTTATGGGCTCAGTAGCTCAAGGCGTGCCCCAGATGCTCTT
genomic: ATGTCATAATGGCTGAAGTAGTTCACTCCGTAGCTGATTTTGCTAACCAGgtttgttgct ... gatgttgtagGCACTTCTTGCTTATGGGCTCAGTAGCTCAAGGCGTGCCCCAGATGCTCTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atattgactattgggtgcaggaaaaaactgatatatatatatattgatgttgtagGCACTTCTTGCTTATGGGCTCAGTAGCTCAAGGCGTGCCCCAGATGCTCTTCATCC
aaaaaactgatatata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgttgctgttatgcttgtttgctgcttttgtgtccagtttaatatattgactattgggtgcaggaaaaaactgatatatatatatattgatgttgtagGCACTTCTTGCTTATGGGCTCAGTAGCTCAAGGCGTGCCCCAGATGCTCTTCATCC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG