Sequence
atgc intronic sequence ATGC exonic sequencegttcatattcacactttaatagcttctttagcttagtggtctatgatctgttgctcatgattattttgggttttctcatcagttgagttcttgtctaattttcatatctttttccttgtgctggtgctggtgcagTTTGGTAAAAAGAGTCATGCAGAATGCGCTAGATTCTCACCAGATGGACAGTTTCTTGCATCTTCTTCTGTGGATGGTTTTATCGAG
Basic information
species | Arabidopsis thaliana |
transcript | AT1G73720.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G73720.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA05G30430.2 (Glycine max), 3'ss of exon 6
-----------------------------------------------------------------gttcata--ttcacactttaatagcttctttagcttagtggtctatga--tctgttgctcatgattattttgg--gttttctcatcagttgagttcttgtctaattttcatatctttttccttgtgctggtgctggtgcagTTTGGTAAAAAGAGTCATGCAGAATGCGCTAGATTCTCACCAGATGGACAGTTTCTTGCATCTTCTTCTGTGGATGGTTTTATCGAG
|| | | || | | | | |||| || || | ||||| | |||| |||| |||||||| || || | || |||| |||| || | | ||| | ||||| |||| || ||||||| | ||| |||||||||||||| ||| | || ||||||||||| |||||||||| ||| | || || ||||| ||||| |||
gtatgctttctatattcatttaggcattgtttcgcagtttgattagttttattctgccaaatcacattgaaggttgcataatctgaccatttctgtatttttctttcatatgaaatttgttattcatcattattttccctgtcttattattt-ttgaaggcttgcatatctgac---ccttatgttttgtgtc--tgcttgtttagTTTGGGACAAAAAGTCATGCAGAATGTGCTTGCTTTTCACCAGATGGGCAGTTTCTTGTATCATGCTCAGTTGATGGGTTTATTGAG
upper sequence: AT1G73720.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA08G13560.2 (Glycine max), 3'ss of exon 6
-----------------------------------------------------------------gttcatattcac--actttaatagcttctttagcttagtggtctatga--tctgttgctcatgattattttgggttttctcatcagttgagttcttgtctaattttcatatctttttccttgtgctggtgctggtgcagTTTGGTAAAAAGAGTCATGCAGAATGCGCTAGATTCTCACCAGATGGACAGTTTCTTGCATCTTCTTCTGTGGATGGTTTTATCGAG
|| | | | | | | | |||| || || | ||||| | |||| |||| |||||| || | | || |||| |||| |||| | ||| | ||||| |||| || ||||||| | ||| |||||||||||||| ||| | || ||||||||||| |||||||||| ||| | || || ||||| ||||| |||
gtaaactttctatattcagtatggcattgtttcacagtttgattagttttattctgccaaatcacattgaaggttgcctaatctgaccatttctctatttttctttcatatgaaatttgttattcatcattattccctgtcgtattattt-ttgaaggcttgcataatct--gacccttatgttttgtgtc--tgcttgtttagTTTGGGACAAAAAGTCATGCAGAATGTGCTTGCTTTTCACCAGATGGGCAGTTTCTTGTATCATGCTCAGTTGATGGGTTTATTGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agttgagttcttgtctaattttcatatctttttccttgtgctggtgctggtgcagTTTGGTAAAAAGAGTCATGCAGAATGCGCTAGATTCTCACCAGATGGACAGTTTCTTGCATCTTCTTCTGTGGATGGTTTTATCGAG
gtctaat putative branch site (score: 3)
taattttcatatcttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttcatattcacactttaatagcttctttagcttagtggtctatgatctgttgctcatgattattttgggttttctcatcagttgagttcttgtctaattttcatatctttttccttgtgctggtgctggtgcagTTTGGTAAAAAGAGTCATGCAGAATGCGCTAGATTCTCACCAGATGGACAGTTTCTTGCATCTTCTTCTGTGGATGGTTTTATCGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA