Sequence
atgc intronic sequence ATGC exonic sequencegtgagtcccttgggttatatacctctacttatgtacgtgtgttgcggtttttagcagcaattattcttattgtgtttggtgatttgtctgcagATGCAACTTACTTCATCGAAGTAGATAGGTTACTGCGCCCTGGAGGATATCTTGTAATCTCTGGCCCACCTGTACAATGGCCTAAACAAGACAAAGAATG
Basic information
species | Arabidopsis thaliana |
transcript | AT4G00740.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G00740.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA09G40110.2 (Glycine max), 3'ss of exon 3
gtgagtcccttgggttatatacctctacttatgtacgtgtgttgcggtttttagcagcaattattcttattgtgtt--tggtgatttgtct-gcagATGCAACTTACTTCATCGAAGTAGATAGGTTACTGCGCCCTGGAGGATATCTTGTAATCTCTGGCCCACCTGTACAATGGCCTAAACAAGACAAAGAATG
|| ||| | | || | | || ||| | | | || | | || ||| || | ||| | | | || || || |||||||| |||| ||||| ||||| || || ||||| || ||||| |||||| |||| |||||||| || ||||| || |||||||||||||| ||||||||
gtaagttcttca--ttgcagctcact-----tgtgcatatattccaatcttctgca-tgcttgtcctttccctaatgcagcaaatgtgccttgcagATGCCTCTTATTTCATTGAAGTGGACAGATTACTTCGTCCTGGTGGATATTTTGTCATCTCTGGTCCCCCTGTTCAGTGGCCTAAACAAGATAAAGAATG
upper sequence: AT4G00740.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA07G08360.1 (Glycine max), 3'ss of exon 3
gtgagtcccttgggttatatacctctacttatgtacgtgtgttgcggtttttagcagcaattattcttattgtgtttggtgatttgtctgcagATGCAACTTACTTCATCGAAGTAGATAGGTTACTGCGCCCTGGAGGATATCTTGTAATCTCTGGCCCACCTGTACAATGGCCTAAACAAGACAAAGAATG
|| ||| | | || | || | || | | | || | | || || | | | || || |||||||||| |||| ||||| ||||| || || ||||| |||||||| |||||| | || || ||||| || ||||| || |||||||||||||| ||||||||
gtaagttctt--aattgcag---ctgacctttgcatatcttgcaaacttctaaatagacatcactgccctaatgcagaaaccttgccttgcagATGCATCTTATTTCATTGAAGTGGACAGATTACTTCGCCCTGGTGGATATTTAGTCATTTCTGGTCCCCCTGTTCAGTGGCCTAAACAAGATAAAGAATG
upper sequence: AT4G00740.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA18G45990.1 (Glycine max), 3'ss of exon 3
gtgagtcccttgggttatatacctctactta--tgtacgtgtgttgcggtttttagcagcaattattcttattgtgtttggtgatt-tgtct-gcagATGCAACTTACTTCATCGAAGTAGATAGGTTACTGCGCCCTGGAGGATATCTTGTAATCTCTGGCCCACCTGTACAATGGCCTAAACAAGACAAAGAATG-
| ||| | | || || | | ||| | || | | || || | |||| | | | | || || |||||||| |||| ||||| ||||| || || ||||| |||||||| |||||| | || ||||| || || ||||| || |||||||||||||| ||||||||
----------taagttcttcattcctgctcactcatgcgtatcttacaatcttctacatgcttgtctcttccctaatgcagcaaatgtgccttgcagaTGCCTCTTATTTCATTGAAGTGGACAGATTACTTCGCCCTGGTGGATATTTAGTCATCTCCGGTCCCCCTGTTCAGTGGCCTAAACAAGATAAAGAATGG
upper sequence: AT4G00740.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA03G01870.1 (Glycine max), 3'ss of exon 3
gtgagtcccttgggttatatacctctacttatgtacgtgtgttgcggtttttagcagcaattattcttattgtgtttggtgatttgtctgcagATGCAACTTACTTCATCGAAGTAGATAGGTTACTGCGCCCTGGAGGATATCTTGTAATCTCTGGCCCACCTGTACAATGGCCTAAACAAGACAAAGAATG
|| ||| | | || | || | || | | | || | | | ||| | | | || || |||||||| | |||| ||||| ||||| || || ||||| |||||||| |||||| | || || ||||| || ||||| || |||||||||||||| ||||||||
gtaagttcttc-----atcactgccgacctttgcatatcttgcaaacttctaaatcgaaataacttccctaatgcagaaaccttgccttgcagATGTATCTTATTTCATTGAAGTGGACAGATTACTTCGCCCTGGTGGATATTTAGTCATTTCTGGTCCCCCTGTTCAGTGGCCTAAACAAGATAAAGAATG
upper sequence: AT4G00740.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv15s0048g01990.t01 (Vitis vinifera), 3'ss of exon 3
gtgagtcccttgggttatatacctctacttatgtacgtgtgttgcggtttttagcagcaattattcttattgtgtttggtgatttgtctgcagATGCAACTTACTTCATCGAAGTAGATAGGTTACTGCGCCCTGGAGGATATCTTGTAATCTCTGGCCCACCTGTACAATGGCCTAAACAAGACAAAGAATG
|||||| | | | || | || | || ||| | || | || | | || ||| | | || | | |||||||||||| || ||| | ||||| ||| || |||| || || ||||| || |||||||||||||| || ||||||| ||||||||||||||| || |||||
gtgagttctatatgcaatgtggctattgaaatttacacttcttac---ttgtcctcctacttgctct-gtaataaaatgttctggatttgcagATGCAACATATTTCCTTGAAGTGGATCGGCTACTTCGACCAGGAGGGTACCTTGTAATCTCTGGTCCCCCTGTACTATGGCCTAAACAAGATAAGGAATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtgttgcggtttttagcagcaattattcttattgtgtttggtgatttgtctgcagATGCAACTTACTTCATCGAAGTAGATAGGTTACTGCGCCCTGGAGGATATCTTGTAATCTCTGGCCCACCTGTACAATGGCCTAAACAAGACAAAGAATG
tttgtct CT-rich tract
aattattcttattgt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagtcccttgggttatatacctctacttatgtacgtgtgttgcggtttttagcagcaattattcttattgtgtttggtgatttgtctgcagATGCAACTTACTTCATCGAAGTAGATAGGTTACTGCGCCCTGGAGGATATCTTGTAATCTCTGGCCCACCTGTACAATGGCCTAAACAAGACAAAGAATG
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