Sequence
atgc intronic sequence ATGC exonic sequence...gtaattcttcttcccaaagtttcttggttccatacttccattagtttgtcaaacgattttcaggtcaaaggcctaatgatccattttatttcatttgcagTCGAAAAATCCAGTTTTCATTAGTCATCCTTCTCCTTGGTGTTGGAATTGCAACCGTAACAGATCTCCAGCTTAATATGCTGGGTTCTGTCTTGTCGCTA
Basic information
species | Arabidopsis thaliana |
transcript | AT2G30460.2 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G30460.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: EFJ20116 (Selaginella moellendorffii), 3'ss of exon 3
gtaattcttcttcccaaagtttcttggttccatacttccattagtttgtcaaacgattttcaggtcaaaggcctaatgatccattttatttcatttgcagTCGAAAAATCCAGTTTTCATTAGTCATCCTTCTCCTTGGTGTTGGAATTGCAACCGTAACAGATCTCCAGCTTAATATGCTGGGTTCTGTCTTGTCGCTA
| | | || | || || ||| ||| || |||| |||| || ||||||| || || ||| || | || | | |||||| ||||||| |||||||| ||| ||||||||||||||||||| || |||||||| || || |
---------------------------------------gtaactgtggttg-cctttgtctcgtcggtggctta-tgat--ggtttactt--gttgcagTAAAAGCATTCAGCTTGCCTTGCTGCTACTTCTCGTTGGTGTGGGAATTGCCACCATAACAGATCTCCAGCTTAACGCTCTTGGTTCTGTTTTATCCGTC
upper sequence: AT2G30460.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: EFJ14247 (Selaginella moellendorffii), 3'ss of exon 3
gtaattcttcttcccaaagtttcttggttccatacttccattagtttgtcaaacgattttcaggtcaaaggcctaatgatccattttatttcatttgcagTCGAAAAATCCAGTTTTCATTAGTCATCCTTCTCCTTGGTGTTGGAATTGCAACCGTAACAGATCTCCAGCTTAATATGCTGGGTTCTGTCTTGTCGCTA
|| | | | || || ||| ||| || |||| |||| || ||||||| || || ||| || | || | | |||||| ||||||| |||||||| ||| ||||||||||||||||||| || |||||||| || || |
----------------------------------------gtaactgtgcttgcctttgtctcgtcggtggctta-tgat--ggtttactt--gttgcagTAAAAGCATTCAGCTTGCCTTGCTGCTACTTCTCGTTGGTGTGGGAATTGCCACCATAACAGATCTCCAGCTTAACGCTCTTGGTTCTGTTTTATCCGTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgtcaaacgattttcaggtcaaaggcctaatgatccattttatttcatttgcagTCGAAAAATCCAGTTTTCATTAGTCATCCTTCTCCTTGGTGTTGGAATTGCAACCGTAACAGATCTCCAGCTTAATATGCTGGGTTCTGTCTTGTCGCTA
gcctaat putative branch site (score: 3)
ttttatttc putative PPT
attttatttcattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaattcttcttcccaaagtttcttggttccatacttccattagtttgtcaaacgattttcaggtcaaaggcctaatgatccattttatttcatttgcagTCGAAAAATCCAGTTTTCATTAGTCATCCTTCTCCTTGGTGTTGGAATTGCAACCGTAACAGATCTCCAGCTTAATATGCTGGGTTCTGTCTTGTCGCTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG