Sequence
atgc intronic sequence ATGC exonic sequencegtgagtcacactgtccatatcagtggtttctgtctcttatatgtgcagttactgacagcaaactctttctgttttcgttctgacattggtaaaactatatttgcagAAACATTCTGCGGGATGATTCAGGGCATCTGAAAGTTGCAGACTTTGGAGTAAGCAAGCTTGTTACTGTTAAAGAAGACAAGCCTTTTACATGTCAAGAC
Basic information
species | Arabidopsis thaliana |
transcript | AT4G18950.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G18950.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA13G29520.1 (Glycine max), 3'ss of exon 7
--gtgagtcacactgtccatatcagtggtttctgtctcttatatgtgcagttactgacagcaaactctttctgttttcgttctgacattggtaaaactatatttgcagAAACATTCTGCGGGATGATTCAGGGCATCTGAAAGTTGCAGACTTTGGAGTAAGCAAGCTTGTTACTGTTAAAGAAGACAAGCCTTTTACATGTCAAGAC
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aagcctttcttgttctttatgttaa--gtccatgtgtctggttta-atagtctgatacagtctacactttttttataaatattgcttatgagtaagcta-----acagTAATATATTGCGGGATGATTCTGGGCACCTAAAAGTTGCAGACTTTGGGGTTAGCAAGTTGCTGGCAGTTAAAGAAGACAAGCCTCTAACTTGCCACGAT
upper sequence: AT4G18950.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA15G09490.2 (Glycine max), 3'ss of exon 7
--------------------------gtgagtcacactgtccatatcagtggtttctgtctcttatatgtgcagttactgacagcaaactctttctgttttcgttct-gacattggt-aaaactatatttgcagAAACATTCTGCGGGATGATTCAGGGCATCTGAAAGTTGCAGACTTTGGAGTAAGCAAGCTTGTTACTGTTAAAGAAGACAAGCCTTTTACATGTCAAGAC
||| | | || | | ||| | | | || || || ||| | | || | | ||| || | | ||| | | | || | ||| || || ||||||||||||| ||||| || ||||||||||||||||| || |||||| | | | |||||||||||||||||| | || || |||||
gtaagtttttctttttttcaattattgtgttttcctctattcttattcttt-tatgtgaagtccatgcgtctgtttaatagtctgatacagtctacactttttttatcaatgttgcttatgagtaagctaacagTAATATATTGCGGGATGATTCTGGGCACCTAAAAGTTGCAGACTTTGGGGTTAGCAAGTTGCTGGCAGTTAAAGAAGACAAGCCTCTAACTTGCCAAGAT
upper sequence: AT4G18950.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv10s0003g02060.t01 (Vitis vinifera), 3'ss of exon 7
gtgagtcacactgtccatatcagtggtttctgtctcttatatgtgcag-ttactgacagcaaactctttctgttttcgttctgacattggtaaaactatatttgcagAAACATTCTGCGGGATGATTCAGGGCATCTGAAAGTTGCAGACTTTGGAGTAAGCAAGCTTGTTA---CTGTTAAAGAAGACAA-GCCTTTTACATGTCAAGAC
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---agacagac-acacacacaaacatgcacttgcataaatgtattttccttattagtctgaaaatatcagagctttc-ttgtgttacc--ttcgagtaagataacagAAATATATTGCGGGATGATTCGGGACATCTGAAAGTTGCAGACTTTGGAGTTAGCAAGCTGCTGAAAGTTGCTAATACAGTTAAAGAAGATTACCCTCTA---- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctgacagcaaactctttctgttttcgttctgacattggtaaaactatatttgcagAAACATTCTGCGGGATGATTCAGGGCATCTGAAAGTTGCAGACTTTGGAGTAAGCAAGCTTGTTACTGTTAAAGAAGACAAGCCTTTTACATGTCAAGAC
taaaactatattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagtcacactgtccatatcagtggtttctgtctcttatatgtgcagttactgacagcaaactctttctgttttcgttctgacattggtaaaactatatttgcagAAACATTCTGCGGGATGATTCAGGGCATCTGAAAGTTGCAGACTTTGGAGTAAGCAAGCTTGTTACTGTTAAAGAAGACAAGCCTTTTACATGTCAAGAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG