Sequence
atgc intronic sequence ATGC exonic sequence...agtagaacccatccgcttttggttaacagttacatcgtttgcatttgtgctttctgatctgtgttttgtactcggtaaccaatgtgatcatttaatgcagGTTCAATCGATTGCATCATTCTGCAGCACACTATTAGGCACAGCTGTGCGGATTCCATGTGAGGTGCTGAAGCAACGGTTGCAGGCTGGCATGTTTAACA
Basic information
species | Arabidopsis thaliana |
transcript | AT2G35800.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G35800.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GRMZM2G003033_T01 (Zea mays), 3'ss of exon 5
----------------------------------------------------------------------agtagaacccatccgcttttggt-----taacagttacatcgtttgcatttgtgctttctgatctgtgttttgtactcggtaaccaatgtgatcatt-taatgcagGTTCAATCGATTGCATCATTCTGCAGCACACTATTAGGCACAGCTGTGCGGATTCCATGTGAGGTGCTGAAGCAACGGTTGCAGGCTGGCATGTTTAACA
| |||| | | || || ||| || || | | || || | | || || || | | | | || || | || | | |||| ||||| |||||||| |||||||||||| | |||| || || || ||||| || |||||||| || |||||||| ||||||||||| || || ||||
gtatgatttactactacagtacttcttgtgcaactgcaagctcttatggagcccactttaaaaatcttatgatcgaactttttagaacttagtagtggtaataggaactttctggtttttggtaatagttatcgtgctttatggaattgcttgatgatatgctttttgttccgtagGTGCAATCAATTGCATCCTTCTGCAGCACAGTCCTAGGGACTGCAGTCCGGATCCCTTGTGAGGTTCTTAAGCAACGTTTGCAGGCTGGAATATTCAACA
upper sequence: AT2G35800.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GRMZM2G146378_T01 (Zea mays), 3'ss of exon 5
----agtagaacccatccgcttttggttaacagttacatcgtttgcatttgtgctttctgatctgtgttttgtactcggtaaccaatgtgatcatt-taatgcagGTTCAATCGATTGCATCATTCTGCAGCACACTATTAGGCACAGCTGTGCGGATTCCATGTGAGGTGCTGAAGCAACGGTTGCAGGCTGGCATGTTTAACA
||||| | ||| | || || || | | | ||| | | | ||| || | | | | | || || | || | |||| ||||| |||||||| |||||||||||| | ||||| || || || || || || |||||||| || ||||| || ||||||||||| || || |||
actttttagaatttagtagctgt-----aatagaaactttctggttctctgtaatagttattgtgttttgcggaattgcttgatgatatgctttttgttccatagGTGCAATCAATTGCATCCTTCTGCAGCACAGTCTTAGGGACTGCAGTCCGTATCCCTTGTGAGGTTCTTAAGCAGCGATTGCAGGCTGGAATATTCGACA
upper sequence: AT2G35800.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA10G35730.1 (Glycine max), 3'ss of exon 6
agtagaacccatccgcttttggttaacagttac--atcgtttgcatttgtgctttctgatctgtgttttgtactcggtaaccaatgtgatcatttaatgcagGTTCAATCGATTGCATCATTCTGCAGCACACTATTAGGCACAGCTGTGCGGATTCCATGTGAGGTGCTGAAGCAACGGTTGCAGGCTGGCATGTTTAACA
| | || | | ||||| | |||| || | | | | ||| | ||| | | || || | | | || | |||| |||| ||||| | ||||||||||| |||||| | || || |||||||||||||| || ||||| ||| ||||||| |||| |||||||| | ||| |||
atttttacgt-taggagattggtaataagttctttatgttgtttaatagtgtctactgttacttcttaaaatctagaagtttcacat-atgagcaaatgtagGTACAATCTGTGGCATCATTCTGTAGCACATTTTTGGGAACAGCTGTGCGGATCCCCTGTGAAGTGTTGAAGCAGAGGTTACAGGCTGGTCTTTTTGACA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtgctttctgatctgtgttttgtactcggtaaccaatgtgatcatttaatgcagGTTCAATCGATTGCATCATTCTGCAGCACACTATTAGGCACAGCTGTGCGGATTCCATGTGAGGTGCTGAAGCAACGGTTGCAGGCTGGCATGTTTAACA
atcatttaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agtagaacccatccgcttttggttaacagttacatcgtttgcatttgtgctttctgatctgtgttttgtactcggtaaccaatgtgatcatttaatgcagGTTCAATCGATTGCATCATTCTGCAGCACACTATTAGGCACAGCTGTGCGGATTCCATGTGAGGTGCTGAAGCAACGGTTGCAGGCTGGCATGTTTAACA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - -aacccat
- - - - - - - gcttttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgttttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaccaat