Sequence
atgc intronic sequence ATGC exonic sequencegtttgtgcttgataaacattattcgataatcagatttgatctttgtttgattaaggaaaatttcatatatatagGCTTCTCTATCCCCACGGCGTCTTTGTTTGTTCAAGACCACAACGGGTTTACCTCTTAGGGAATTGAATTTTTTAACTTCTATACTCGCTGTTCGTATGA
Basic information
species | Arabidopsis thaliana |
transcript | AT4G30510.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G30510.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA02G36960.2 (Glycine max), 3'ss of exon 2
----------------------------------------------------gtttgtgcttga---taaacattattcgataatcagatttgatct-----------ttgtttgattaaggaaaatttcat--atatatagGCTTCTCTATCCCCACGGCGTCTTTGTTTGTTCAAGACCACAACGGGTTTACCTCTTAGGGAATTGAATTTTTTAACTTCTATACTCGCTGTTCGTATGA
|| |||||||| | | | | || | | | || ||||| || | | | || | | || | ||| | || || || ||||||||||| ||||| || || || || ||||||| |||||||||||| ||||||| ||||| |||||||| ||||
gtactgtactgtaatcaaactagctttgctaatggctactatctaccttaccgtgtgtgcttgggcctgggcctgggcctgggctcgggctcgggctctgatagtgtgttgttgttttgactgatgcatgatgcacgtgcagCCATCTTTGTCTCCTCGCCGTCTTTGTTTATTCAATACAACCACTGGAGCTGCTCTTAGAGAATTGAATTTTCTAACTTCCATACTTGCTGTTCGCATGA
upper sequence: AT4G30510.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA17G07800.1 (Glycine max), 3'ss of exon 3
-gtttgtgct-tgataaacattattcgataatcagatttgatctttgt-ttgattaa---ggaaaatttcatatatatagGCTTCTCTATCCCCACGGCGTCTTTGTTTGTTCAAGACCACAACGGGTTTACCTCTTAGGGAATTGAATTTTTTAACTTCTATACTCGCTGTTCGTATGA
| || || | | || | || | | || ||| ||| || | | || | || || | ||| | ||||| || ||||||||||| ||||| || || || || ||||||| |||||||||||| ||||||| ||||| |||||||| ||||
gttccgtactatactgtacttgggctcgggctcgggctctgactgtgtattgttttgactgatacatgatgcacatgcagCCATCTTTGTCCCCTCGCCGTCTTTGTTTATTCAATACAACCACTGGAGCTGCTCTTAGAGAATTGAATTTTCTAACTTCCATACTTGCTGTTCGCATGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tattcgataatcagatttgatctttgtttgattaaggaaaatttcatatatatagGCTTCTCTATCCCCACGGCGTCTTTGTTTGTTCAAGACCACAACGGGTTTACCTCTTAGGGAATTGAATTTTTTAACTTCTATACTCGCTGTTCGTATGA
gtttgat putative branch site (score: 5)
tttgattaaggaaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgtgcttgataaacattattcgataatcagatttgatctttgtttgattaaggaaaatttcatatatatagGCTTCTCTATCCCCACGGCGTCTTTGTTTGTTCAAGACCACAACGGGTTTACCTCTTAGGGAATTGAATTTTTTAACTTCTATACTCGCTGTTCGTATGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT