Sequence
atgc intronic sequence ATGC exonic sequencegtattaaatcaactgttcatctccaaactccttatgttccattactcttaagaattcacaatcttttctgatgttgttttccttttttccagCCTTGAGGCAGCTGGGATACTCCGGGAGATTGCAAACTACCTTGATGCCAATATACCCAACGTTGAGCTCATTGCAAGTGCTATCGGTGTTGTATCAGCA
Basic information
species | Arabidopsis thaliana |
transcript | AT3G19490.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G19490.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA20G26380.1 (Glycine max), 3'ss of exon 7
gtattaaatcaactg----ttcatc-tccaaactccttatgttccattactcttaagaattcacaatcttttctgatgttgttttccttt----tttccagCCTTGAGGCAGCTGGGATACTCCGGGAGATTGCAAACTACCTTGATGCCAATATACCCAACGTTGAGCTCATTGCAAGTGCTATCGGTGTTGTATCAGCA
| || || ||||| | ||| | || || ||| || | | | || | | | || | |||| ||| | | || |||||| |||||||||||||| || ||||| || ||||||||||||||||| | | || | ||| || ||||| ||| ||| || | |||| |||
-ttttgcatgaactgtgattacattatgtaatatctttaaatttccaaattattcatgttaactggttttatttgatcaaatttaaccatcatattggcagCCTGGAGGCAGCTGGGATTCTTCGGGAAATAGCAAACTACCTTGATGCACACGTGCCAAGTAGTGAACTGATTGCCAGTAGTATTGGACTCATATCTGCA
upper sequence: AT3G19490.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA10G40920.1 (Glycine max), 3'ss of exon 8
gtattaaatcaactgt--tcatctc----caaactccttatgttcc--attactcttaagaattcacaatcttttctgatgttgttttccttttttccagCCTTGAGGCAGCTGGGATACTCCGGGAGATTGCAAACTACCTTGATGCCAATATACCCAACGTTGAGCTCATTGCAAGTGCTATCGGTGTTGTATCAGCA
| || || |||||| | | | || | | | |||| |||| || | || | | ||| || || | | || |||||| |||||||||||||| || ||||| || ||||||||||||||||| || | || | ||| || ||||| ||| |||| || | |||| |||
cttttgcatgaactgtgattacattatggcatatgtttaaatttccaaattattcatgttaactgatttacttgatcaattttaaccatcatattggcagCCTGGAGGCAGCTGGGATTCTTCGGGAAATAGCAAACTACCTTGATGCACATGTGCCAAGTAGTGAACTGATTGCCAGTACTATTGGACTCATATCTGCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tccattactcttaagaattcacaatcttttctgatgttgttttccttttttccagCCTTGAGGCAGCTGGGATACTCCGGGAGATTGCAAACTACCTTGATGCCAATATACCCAACGTTGAGCTCATTGCAAGTGCTATCGGTGTTGTATCAGCA
ttctgat putative branch site (score: 3)
tcttttctgatgttgt CT-rich tract
ttaagaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtattaaatcaactgttcatctccaaactccttatgttccattactcttaagaattcacaatcttttctgatgttgttttccttttttccagCCTTGAGGCAGCTGGGATACTCCGGGAGATTGCAAACTACCTTGATGCCAATATACCCAACGTTGAGCTCATTGCAAGTGCTATCGGTGTTGTATCAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA