Sequence
atgc intronic sequence ATGC exonic sequence...cagcttactttgtattcttgttctcctatccataacataataacagtggattggatcctctgagattgagactgacattgtatagattctttgattacagGTAAATCCACAGTTCTATGCATTTAGGTGGATCACTCTCCTCCTAACACAAGAGTTTAGTTTCTTTGACAGTCTTCACATATGGGATGCACTCTTAAGCG
Basic information
species | Arabidopsis thaliana |
transcript | AT1G04830.2 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G04830.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA11G36520.1 (Glycine max), 3'ss of exon 7
cagcttactttgtattcttgttctcctatc-cataacataataacagtggat-tggatcctctgagattgagactgacattgtatagattct---ttgattacagGTAAATCCACAGTTCTATGCATTTAGGTGGATCACTCTCCTCCTAACACAAGAGTTTAGTTTCTTTGACAGTCTTCACATATGGGATGCACTCTTAAGCG
| ||| | || | || | || | | || | | || | ||| | | | || | | |||| | || ||||| ||||| || |||||||||||||||||||| ||||||||| | ||||| || |||| ||| ||||| ||||| || ||||| | | ||||| |
-----tgtcttgagtgtcaattgccagatgatttgacgtgtttgatttgattattgagcagttgatcagaaaaatctcacatttctggttctaattccatgtcagGTTAATCCCCAATTCTATGCATTTAGGTGGATTACTCTCCTCTTGACACAGGAATTTAATTTTGCTGACATCCTTCATATTTGGGACGTCATTTTAAGTG
upper sequence: AT1G04830.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA08G11760.1 (Glycine max), 3'ss of exon 7
cagcttactttgtattcttgttctcctatccataacataataacagtggattggatcctctgagattgagactgacattgtatagattct-----ttgattacagGTAAATCCACAGTTCTATGCATTTAGGTGGATCACTCTCCTCCTAACACAAGAGTTTAGTTTCTTTGACAGTCTTCACATATGGGATGCACTCTTAAGCG
|| || | | || | || || | || || || || | | | | | | | || || |||| | || ||||| ||||| || |||||||||||||||||||| |||||||| || || || || || | ||| |||||| |||||||| ||||| | || |||||||
----tttgcgtgcacacctgctggatgattca-accaatgtatttttgcttttggttattgaacagtttatcagatgggtcatgttttctggttctgaatgtcagGTCAATCCTCAATTCTATGCATTTAGGTGGATTACTCTCCTGCTGACTCAGGAATTCAATTTTGCTGACAGCCTTCACATTTGGGACACTCTTTTAAGCG
upper sequence: AT1G04830.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA05G28660.1 (Glycine max), 3'ss of exon 7
cagcttactttgtattcttgttctcctatcca-taacataataacagtgg---attggat--cctctgagattgagactgacattgtatagattctttgattacagGTAAATCCACAGTTCTATGCATTTAGGTGGATCACTCTCCTCCTAACACAAGAGTTTAGTTTCTTTGACAGTCTTCACATATGGGATGCACTCTTAAGCG
|| || | | || | || || | || | | | | |||| | | | |||||| || | ||| | | | | | ||| ||||| ||||| || |||||||||||||||||||| |||||||| || || || || || | ||| ||||| |||||||| |||||| | || |||||||
-ttttttgcatgcacacctgctggatgattcaaccatgtatttgcttttggctattgaacagtttatcagattg---ctcatattttctgg--ttctgaatttcagGTCAATCCTCAATTCTATGCATTTAGGTGGATTACTCTCCTGCTGACTCAGGAATTCAATTTTGCCGACAGCCTTCACATTTGGGATACTCTTTTAAGCG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtggattggatcctctgagattgagactgacattgtatagattctttgattacagGTAAATCCACAGTTCTATGCATTTAGGTGGATCACTCTCCTCCTAACACAAGAGTTTAGTTTCTTTGACAGTCTTCACATATGGGATGCACTCTTAAGCG
ttcttt CT-rich tract
attgtata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cagcttactttgtattcttgttctcctatccataacataataacagtggattggatcctctgagattgagactgacattgtatagattctttgattacagGTAAATCCACAGTTCTATGCATTTAGGTGGATCACTCTCCTCCTAACACAAGAGTTTAGTTTCTTTGACAGTCTTCACATATGGGATGCACTCTTAAGCG
- - - - - - - - - - - - cctatcc
- - - - - - - - - - - - - - - - -aacataa
- - - - - - - - - - - - - - - - - - - - - - - -ggattgg