Sequence
atgc intronic sequence ATGC exonic sequencegtaatgaatatcatctcttagtccaaatttgagggttcataatttcttaatggattgattggggaatatgcagGGGAATAAGTGACGAAGCGTTGGAGTTATCAGATCTGCGTTGCAGTATTCCGATGAATGGAATGGTTGATTCGTTTAATGTCTCAGTGGCTGCAGGGATT
Basic information
species | Arabidopsis thaliana |
transcript | AT5G15390.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G15390.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA18G49880.1 (Glycine max), 3'ss of exon 3
---------------gtaatgaatatcatctct-tagtccaaatttgagggttcat--aatttcttaatggattgattggggaatat---------gcagGGGAATAAGTGACGAAGCGTTGGAGTTATCAGATCTGCGTTGCAGTATTCCGATGAATGGAATGGTTGATTCGTTTAATGTCTCAGTGGCTGCAGGGATT
|||| ||| | || | | | | | | | || | ||| ||| | || | ||| ||||||| || ||||| || || |||||||| |||||||||| |||||||||||| ||| |||||||| | || || ||||| ||||| |||||||| ||
gaattaaaatattaaataattcttatatttcctgtgacttaggtcttactttctgctcaggttttgtatgtatttaacggtggctattttctttttgcagGGGTATTAGTGATGAGGCATTGGAGTTGTCAGATCTGCATTGCAGTATTCCTATGGCAGGAATGGTGAAGTCTTTCAATGTTTCAGTTGCTGCAGGAATC
upper sequence: AT5G15390.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: Vv14s0108g01380.t01 (Vitis vinifera), 3'ss of exon 3
-----------------------------------------------------------------------------------------gta-atgaatatcatctcttagtccaaatttgagggttcataatttcttaatggattgattggggaatatgcagGGGAATAAGTGACGAAGCGTTGGAGTTATCAGATCTGCGTTGCAGTATTCCGATGAATGGAATGGTTGATTCGTTTAATGTCTCAGTGGCTGCAGGGATT
| ||| | |||| || | | ||| | | || || ||||| | | | || ||||||||||||||| ||||| | || || |||||| ||| |||||||||||| ||||| || ||||| || || || ||||| ||||| ||||| |||||
gtgatcatcctctttttttatctacagctctgttcacaaaattgaaatctattcagttacatcatttgatctacttgttctttttccagacacatggttgatatctatttattgacatt-gtcctatgatttttgtttaatatctgcaattcctgatg-acagGGGAATAAGTGATGAAGCTCTAGAATTGTCAGATTTGCATTGCAGTATTCCAATGAAAGGCATGGTGGACTCCTTCAATGTTTCAGTTGCTGCTGGGATCMapped 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|86080510|gb|DR376267.1|DR376267EST: GATATGGACTGGTCATGCCCAACAGCAATAGTTGTTGGAAACGAGGGCAG GGGAATAAGTGACGAAGCGTTGGAGTTATCAGATCTGCGTTGCAGTATTCC
genomic: GATATGGACTGGTCATGCCCAACAGCAATAGTTGTTGGAAACGAGGGCAGgtaatgaata ... gaatatgcagGGGAATAAGTGACGAAGCGTTGGAGTTATCAGATCTGCGTTGCAGTATTCC
EST:
gi|125270046|gb|EL284131.1|EL284131EST: TCATGCCCAACAGCAATAGTTGTTGGAAACGAGGGCAG GGGAATAAGTGACGAAGCGTTGGAGTTATCAGATCTGCGTTGCCAGTATTC
genomic: TCATGCCCAACAGCAATAGTTGTTGGAAACGAGGGCAGgtaatgaata ... gaatatgcagGGGAATAAGTGACGAAGCGTTGGAGTTATCAGATCTGCGTTGC-AGTATTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tagtccaaatttgagggttcataatttcttaatggattgattggggaatatgcagGGGAATAAGTGACGAAGCGTTGGAGTTATCAGATCTGCGTTGCAGTATTCCGATGAATGGAATGGTTGATTCGTTTAATGTCTCAGTGGCTGCAGGGATT
ttcataatttcttaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatgaatatcatctcttagtccaaatttgagggttcataatttcttaatggattgattggggaatatgcagGGGAATAAGTGACGAAGCGTTGGAGTTATCAGATCTGCGTTGCAGTATTCCGATGAATGGAATGGTTGATTCGTTTAATGTCTCAGTGGCTGCAGGGATT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG