Sequence
atgc intronic sequence ATGC exonic sequencegtaagtacactttcactctttgattttattataaacattttttctctaatgtttggatgtttgatgtgatatttctttgtcttgaacagCATGTGGAGGACCATCATTTATATTCACTTAACTATCATCACTTTGGGGAGCCAAAAGTATGGTATGGTGTTCCAGGAAGCAATGCAACCGCTCTCGAGA
Basic information
species | Arabidopsis thaliana |
transcript | AT1G30810.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G30810.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA09G09970.1 (Glycine max), 3'ss of exon 6
---gtaagtacactttcactctttgattttattataaacattttttctctaatgtttggatgtttga-----tgtgatatttctttgtctt---gaacagCATGTGGAGGACCATCATTTATATTCACTTAACTATCATCACTTTGGGGAGCCAAAAGTATGGTATGGTGTTCCAGGAAGCAATGCAACCGCTCTCGAGA
| | | || | | ||| |||| || || | ||| | | || | | ||| || || || | ||||||||||| ||||||||||| | |||||||| |||||| |||| ||||| ||||||||||||||||| || || |||||| |||| | || | || |
catatgtcttgatcttgaatttttcatttctttcctttcaaaccctaactatttcctagaaagataacacattgtcatcatttcctgcttcttggaacagCATGTTGAGGACCATCACCTCTATTCACTAAACTATTTGCACTGGGGGGACCCAAAAGTATGGTATGGAGTACCTGGAAGCCATGCTGCAGCCTTGGAAA
upper sequence: AT1G30810.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA08G13610.1 (Glycine max), 3'ss of exon 2
--gtaagtacactttcactct----ttgattttattataaacatt-----ttttctctaatgtttggatgtttgatgtgatatttctttgtcttgaacagCATGTGGAGGACCATCATTTATATTCACTTAACTATCATCACTTTGGGGAGCCAAAAGTATGGTATGGTGTTCCAGGAAGCAATGCAACCGCTCTCGAGA
|||| | || | | | ||| |||| || | | || ||| || ||| | | || | | | | | | | | ||||||||||| ||||||||||| | ||||||||||| |||| |||| || || ||||||||||||||||| |||| |||||| |||| | | ||| ||
aagtaataatgtcttgaattttgcattgcttttgtttcagatcttcatactttcctataaagactaacacatttttcttgtttctttctccttggaacagCATGTTGAGGACCATCACCTCTATTCACTTAATTATCTGCACTGGGGTGACCCAAAAGTATGGTATGGAATTCCTGGAAGCCATGCTCCAGGTCTGGAAG
upper sequence: AT1G30810.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA05G30470.1 (Glycine max), 3'ss of exon 3
--gtaagtacactttcactct----ttgattttattataaacatt-----ttttctctaatgtttggatgtttgatgtgatatttctttgtcttgaacagCATGTGGAGGACCATCATTTATATTCACTTAACTATCATCACTTTGGGGAGCCAAAAGTATGGTATGGTGTTCCAGGAAGCAATGCAACCGCTCTCGAGA
|||| |||| | | ||| |||| || | | || ||| | ||| | || | | | | | | | | ||||||||||| ||||||||||| | ||||||||||| |||| |||| || || ||||||||||||||||| || | |||||| |||| | | ||| ||
aagtaatattgtcttcaattttgcattgcttttgtttcagatcttcatactttccaataaaaactaacacctttttcttgtttctttctccttggaacagCATGTTGAGGACCATCACCTCTATTCACTTAATTATCTGCACTGGGGTGACCCAAAAGTATGGTATGGAGTAGCTGGAAGCCATGCTCCAGGTCTGGAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acattttttctctaatgtttggatgtttgatgtgatatttctttgtcttgaacagCATGTGGAGGACCATCATTTATATTCACTTAACTATCATCACTTTGGGGAGCCAAAAGTATGGTATGGTGTTCCAGGAAGCAATGCAACCGCTCTCGAGA
tatttctttgtctt CT-rich tract
atatttcttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtacactttcactctttgattttattataaacattttttctctaatgtttggatgtttgatgtgatatttctttgtcttgaacagCATGTGGAGGACCATCATTTATATTCACTTAACTATCATCACTTTGGGGAGCCAAAAGTATGGTATGGTGTTCCAGGAAGCAATGCAACCGCTCTCGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA