Sequence
atgc intronic sequence ATGC exonic sequencegtttgattcaattttcccattctgttttttttttgcatttttcacttcttgattagttggttaagttttaaacttgttattacagAACACGAATGCGGAAGGTGCTCCTATAGTTCCTGTCTCAGCGCAACTGAAATACAACATCGATGTTTTGTGTGAGTACATTGTCAAGAAGATTCCACTCC
Basic information
species | Arabidopsis thaliana |
transcript | AT2G18720.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G18720.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: EFJ14781 (Selaginella moellendorffii), 3'ss of exon 4
gtttgattcaattttcccattctgttttttttttgcatttttcacttcttgattagttggttaagttttaaacttgttattacagAACACGAATGCGGAAGGTGCTCCTATAGTTCCTGTCTCAGCGCAACTGAAATACAACATCGATGTTTTGTGTGAGTACATTGTCAAGAAGATTCCACTCC
| | | || ||| ||| | || | ||| | | | ||| ||| || || ||||| | || ||||| ||||||||||| || |||||| |||| ||| | ||||| ||||| || ||||||||||| | |
--------------------------gtatgtccgctcgttttctttcctccttgcagacaccgttcttagtttcggctctgcagGGCACCGTCGCCGATAACGCTCCAGTGGTGCCTGTTTCAGCGCAACTCAAGTACAACGTCGACGTTGTTTGTGAATACATCGTGAAGAAGATTCCCATTC
upper sequence: AT2G18720.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: EFJ26525 (Selaginella moellendorffii), 3'ss of exon 4
gtttgattcaattttcccattctgttttttttttgcatttttcacttcttgattagttggttaagttttaaacttgttattacagAACACGAATGCGGAAGGTGCTCCTATAGTTCCTGTCTCAGCGCAACTGAAATACAACATCGATGTTTTGTGTGAGTACATTGTCAAGAAGATTCCACTCC
| | | || ||| ||||| || | ||| ||| | ||| ||| || || || || | || ||||| ||||||||||| || |||||| |||| ||| | ||||| ||||| || ||||||||||| | |
--------------------------gtatgtccgctcgttttctttcttccttgcagacaccgttcttagttttggctctgcagGGCACCGTCGCCGATAACGCCCCAGTGGTGCCTGTTTCAGCGCAACTCAAGTACAACGTCGACGTTGTTTGTGAATACATCGTGAAGAAGATTCCCATTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttgcatttttcacttcttgattagttggttaagttttaaacttgttattacagAACACGAATGCGGAAGGTGCTCCTATAGTTCCTGTCTCAGCGCAACTGAAATACAACATCGATGTTTTGTGTGAGTACATTGTCAAGAAGATTCCACTCC
tcttgat putative branch site (score: 4)
ttaagttttaaacttg 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgattcaattttcccattctgttttttttttgcatttttcacttcttgattagttggttaagttttaaacttgttattacagAACACGAATGCGGAAGGTGCTCCTATAGTTCCTGTCTCAGCGCAACTGAAATACAACATCGATGTTTTGTGTGAGTACATTGTCAAGAAGATTCCACTCC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG