Sequence
atgc intronic sequence ATGC exonic sequencegtgagttattttcttttttgttttgttttataagacatctatattacagcttcaataataattagaaacctaaatgcatgctcaaaactttttcagAGTTACAGGTGCCGGTCATGTGAGATGCCATCAGAAGCTCATGTTCACTGTTACACTCATCGACAAGGCAGCCTTACGATATCTGTCAAGAAACTTCAAG
Basic information
species | Arabidopsis thaliana |
transcript | AT3G14270.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G14270.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA07G05100.1 (Glycine max), 3'ss of exon 6
gtgagttattttcttttttgttttgttttataagacatctatattacagcttcaataataattagaaacctaaatgcatgctcaaaact--ttttcagAGTTACAGGTGCCGGTCATGTGAGATGCCATCAGAAGCTCATGTTCACTGTTACACTCATCGACAAGGCAGCCTTACGATATCTGTCAAGAAACTTCAAG
|| ||| ||| || | | ||| | | | |||| | || | || || || | | ||| | | | |||||||||| | |||| || ||||| |||||||||||||| ||||| || || || ||||||||||| || | ||||| ||||| ||||||||||| | ||
----gtaattgtctgttctagg--aataaatatgtctttgttatttgaactatggcagtagtt-----tttacagttgttgtcattattactgttcagAGTTATCGATGCCATTCTTGTGAAATGCCATCAGAAGCACATGTGCATTGCTATACTCATCGACAGGGAACACTTACCATATCCGTCAAGAAACTACCAG
upper sequence: AT3G14270.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA16G01590.1 (Glycine max), 3'ss of exon 7
gtgagttattttcttttttgttttgttttataagacatctatattacagcttcaataataattagaaacctaaatgcatgctcaaaactttttcagAGTTACAGGTGCCGGTCATGTGAGATGCCATCAGAAGCTCATGTTCACTGTTACACTCATCGACAAGGCAGCCTTACGATATCTGTCAAGAAACTTCAAG
|| ||| ||| || | | ||| | | | |||| | || | || || || | | ||| |||||| |||||||| |||| || ||||| |||||||| ||||| ||||| || || || ||||||||||| || | ||||| ||||| ||||||||||| | ||
----gtaattgtctgttctagg--aataaatatgtctttgttatttgaactatggcactagtt-----tttacagttgttgtcattactttt-cagAGTTATCAATGCCATTCTTGTGAAATGCCATCGGAAGCACATGTGCATTGCTATACTCATCGACAGGGAACACTTACCATATCCGTCAAGAAACTACCAG
upper sequence: AT3G14270.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: Vv09s0002g00380.t01 (Vitis vinifera), 3'ss of exon 7
gtgagttattttcttttttgttttgttttataagacatctatattacagcttcaataataattagaaacctaaatgcatgctcaaaactttttcagAGTTACAGGTGCCGGTCATGTGAGATGCCATCAGAAGCTCATGTTCACTGTTACACTCATCGACAAGGCAGCCTTACGATATCTGTCAAGAAACTTCAAG
|| | || | ||| | |||| ||| || | | ||| ||| | | | || | | | || || |||||||| | ||||||| || || ||||||||||||||||| |||||||| ||||| |||||| ||||||||| ||| ||||| || || || ||||| | ||
----gtaaggtttctgtttctcacattttc---actctctcaataaaaactt--gtaacattctgtaagactgaggaagcctttg----ttatcagAGTTTCCGGTGCCGATCTTGCGAGATGCCATCAGAAGCACATGTTCATTGTTATACTCATAGACAAGGCACCCTCACGATTTCCGTTAAAAAACTGCCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tattacagcttcaataataattagaaacctaaatgcatgctcaaaactttttcagAGTTACAGGTGCCGGTCATGTGAGATGCCATCAGAAGCTCATGTTCACTGTTACACTCATCGACAAGGCAGCCTTACGATATCTGTCAAGAAACTTCAAG
acctaaa putative branch site (score: 3)
ctttttc putative PPT
aataataattagaaac 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagttattttcttttttgttttgttttataagacatctatattacagcttcaataataattagaaacctaaatgcatgctcaaaactttttcagAGTTACAGGTGCCGGTCATGTGAGATGCCATCAGAAGCTCATGTTCACTGTTACACTCATCGACAAGGCAGCCTTACGATATCTGTCAAGAAACTTCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA