Sequence
atgc intronic sequence ATGC exonic sequencegttctccttcatattcatcctctagaaccaaaacaaatatgtgttttcaacagccctccaggtttttacactgaatctatatgttttcttatgcagCATTGTCACTGTTCACGTTCGCGGTAAAGATTTAAAGACCGGTTCCGTGCTATACGGTAATCTTCATTTGGTGGATCTGGCAGGAAGTGAGAGAGTAGAT
Basic information
species | Arabidopsis thaliana |
transcript | AT1G73860.1 |
intron # | 15 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G73860.1 (Arabidopsis thaliana), 3'ss of exon 15
lower sequence: GLYMA05G35130.1 (Glycine max), 3'ss of exon 14
gttctccttcatattcatcctctagaaccaaaacaaatatgtgttttcaacagccctccaggtttttacactgaatctatatgttttcttatgcagCATTGTCACTGTTCACGTTCGCGGTAAAGATTTAAAGACCGGTTCCGTGCTATACGGTAATCTTCATTTGGTGGATCTGGCAGGAAGTGAGAGAGTAGAT
| || || ||| || || | | || ||| || | | |||| | || || || ||| ||||| | |||| |||| || || || || ||||| ||||| | ||||||||||||||||| ||| ||||||||||||| || ||||||
--gtcacaccacttttttcccctttctttaagatttaacattgaaagcaaaggcgtctattatgataacacca----tgtaaacttatgtacacagTGTTGTCTCAATTCATATTCGTGGGAAGGACTTGAAGACTGGTTCTACTATGGTTGGTAATCTTCATTTGGTAGATTTGGCAGGAAGTGAAAGGGTAGAT
upper sequence: AT1G73860.1 (Arabidopsis thaliana), 3'ss of exon 15
lower sequence: GLYMA08G04580.1 (Glycine max), 3'ss of exon 8
gttctccttcatattcatcctctagaaccaaaacaaatatgtgttttcaacagccctccaggtttttacactgaatctatatgttttcttatgcagCATTGTCACTGTTCACGTTCGCGGTAAAGATTTAAAGACCGGTTCCGTGCTATACGGTAATCTTCATTTGGTGGATCTGGCAGGAAGTGAGAGAGTAGAT
||| | | | || || || || | | ||| | ||| || | || | | | | | || || ||| ||| || || | |||| || | || || || || |||| |||||| | ||||||||||||||||| ||| ||||||||||||| || ||||||
gttacaccactttttttcccccttct-ttaacattgaaatg--------aaagctttcta--ttatgataac-agcatgtaaacttatgtatacagTGTTCTCTCAATTCATATTTGTGGAAAGGACTTGAAGATTGGTTCCACAATGGTTGGTAATCTTCATTTGGTAGATTTGGCAGGAAGTGAAAGGGTAGAT
upper sequence: AT1G73860.1 (Arabidopsis thaliana), 3'ss of exon 15
lower sequence: GLYMA13G33390.1 (Glycine max), 3'ss of exon 12
gttctccttcatattcatcctctagaaccaaaacaaatatgtgttttcaacagccctccaggtttttacactgaatct--atatgttttcttatgcagCATTGTCACTGTTCACGTTCGCGGTAAAGATTTAAAGACCGGTTCCGTGCTATACGGTAATCTTCATTTGGTGGATCTGGCAGGAAGTGAGAGAGTAGAT
||| ||| |||| ||| || ||| ||| ||| || | || || || | ||| | | ||| || | ||| | ||| | |||| |||| || || ||| ||| | ||||| || | ||||||||||||||||| ||| ||||||||||||| || ||||||
gtttgtctt----ttcactctcctga--caattcaacaatgca--------agtcttctag-----tataatgactttcaatacacttgtgtgcacagTGTGGTCTCAATTCATGTTCATGGGAAGGATAAGAAGTCTGGTTCTTCTCTTCAAGGTAATCTTCATTTGGTAGATTTGGCAGGAAGTGAAAGGGTAGAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgttttcaacagccctccaggtttttacactgaatctatatgttttcttatgcagCATTGTCACTGTTCACGTTCGCGGTAAAGATTTAAAGACCGGTTCCGTGCTATACGGTAATCTTCATTTGGTGGATCTGGCAGGAAGTGAGAGAGTAGAT
tgttttctt CT-rich tract
tatatgttttcttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttctccttcatattcatcctctagaaccaaaacaaatatgtgttttcaacagccctccaggtttttacactgaatctatatgttttcttatgcagCATTGTCACTGTTCACGTTCGCGGTAAAGATTTAAAGACCGGTTCCGTGCTATACGGTAATCTTCATTTGGTGGATCTGGCAGGAAGTGAGAGAGTAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA