Sequence
atgc intronic sequence ATGC exonic sequencegttaggatctgttccttttcatttttctctcttttgatttcccaaatttcgtaaaactaaactcattaacctctcttgaagATCCGGGTATCTGCTGTTCTCTCAAATGCTCCTTACCTTCTTAATGTGGACTGTGATCATTACATCAACAACAGCAAGGCAATTAGAGAAGCTATGTGTT
Basic information
species | Arabidopsis thaliana |
transcript | AT2G21770.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G21770.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA05G32100.1 (Glycine max), 3'ss of exon 9
gttaggatctgttccttttcatttttctct--cttt---tgatttccca--aatttcgtaaaactaaactcattaacctctct-------tgaagATCCGGGTATCTGCTGTTCTCTCAAATGCTCCTTACCTTCTTAATGTGGACTGTGATCATTACATCAACAACAGCAAGGCAATTAGAGAAGCTATGTGTT
|| || ||| ||| ||| ||||| | ||| |||| | ||| | | | |||| | ||| | ||||| | |||| ||| || || || ||||||| || || ||||| ||||| || |||||||| ||||| ||||| ||||||||| ||||||||||||||||||
gtaagtatcaattcacttttattttggttcagcttcagatgatgttccattgaccttaaataacttgtttttgtaatgatattaaatatgtgaagGTGCGGGCATCAGCAATTATCACAAATGCACCGTATCTTCTGAATGTTGATTGTGATCACTACATTAACAATAGCAAGGCACTTAGAGAAGCTATGTGTT
upper sequence: AT2G21770.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA08G15380.1 (Glycine max), 3'ss of exon 9
gttaggatctgttcctttt--catttttctc-----tcttttgatttccca--aatttcgtaaaactaaactcattaacctctct-------tgaagATCCGGGTATCTGCTGTTCTCTCAAATGCTCCTTACCTTCTTAATGTGGACTGTGATCATTACATCAACAACAGCAAGGCAATTAGAGAAGCTATGTGTT
|| || ||| ||| ||| ||||| | || |||||| ||| | | | |||| | ||| | ||||| | |||| || || || || | ||||| || || ||||| ||||| || |||||||| ||||| ||||| ||||||||| ||||||||||||||||||
gtaagcatcaattcactttattattttggttcaggttcagctgattttccattgaccttaaataacttgtttttgtaatgatattaaatatgtgaagGTACGGGCTTCAGCAATTATCACTAATGCACCCTATCTTCTGAATGTTGATTGTGATCACTACATTAACAATAGCAAGGCACTTAGAGAAGCTATGTGTT
upper sequence: AT2G21770.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: Vv07s0031g02060.t01 (Vitis vinifera), 3'ss of exon 9
----------------------------------------gttaggatctgttccttttcatttttctctcttttgatt----tcccaaatttcg-----taaa--------actaaactcattaacctctcttg------------------aagATCCGGGTATCTGCTGTTCTCTCAAATGCTCCTTACCTTCTTAATGTGGACTGTGATCATTACATCAACAACAGCAAGGCAATTAGAGAAGCTATGTGTT
|| | | |||||| || | | | | | ||| | | | || ||||| |||| || || | ||| | || | ||| ||| | || || || || || | |||||||| || || ||||| || || |||||||| ||||| |||||||| ||||||||| ||||||||||||||||||
gtaaaccttaaatcaataacaccttcatagatcctttttctttggttgcctttccttgtcttctgtttttacttttagtataatacctggtttcgatgaataaacacttggcacagaatttattgagctttgttgctgtttttatgaatatccaagGTGCGAGTTTCAGCAGTCATTTCAAATGCCCCGTATCTTCTGAACGTTGACTGTGACCATTATATCAACAATAGCAAGGCACTTAGAGAAGCTATGTGTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctctcttttgatttcccaaatttcgtaaaactaaactcattaacctctcttgaagATCCGGGTATCTGCTGTTCTCTCAAATGCTCCTTACCTTCTTAATGTGGACTGTGATCATTACATCAACAACAGCAAGGCAATTAGAGAAGCTATGTGTT
cattaac putative branch site (score: 2)
cctctctt CT-rich tract
taaaactaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttaggatctgttccttttcatttttctctcttttgatttcccaaatttcgtaaaactaaactcattaacctctcttgaagATCCGGGTATCTGCTGTTCTCTCAAATGCTCCTTACCTTCTTAATGTGGACTGTGATCATTACATCAACAACAGCAAGGCAATTAGAGAAGCTATGTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC