Sequence
atgc intronic sequence ATGC exonic sequencegtaaatgttattcatcttggtctttttgaaatgaacacaattagctaaaccctgttcttctaagctgcagAAAAATTTATCAGCTTCTGGTGATGAGGCCTGGAAACAAAGGGAAGCTGCTGTTTTGGCTCTCGGCGCTATTGCTGAAGGCTGCATGAATGGTCTTTACC
Basic information
species | Arabidopsis thaliana |
transcript | AT2G16950.1 |
intron # | 12 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G16950.1 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: GLYMA10G42960.1 (Glycine max), 3'ss of exon 12
-------------------gtaaatgttattc--atcttggtctttttgaaatgaacacaattagctaaaccctgtt----cttctaagc-----tgcagAAAAATTTATCAGCTTCTGGTGATGAGGCCTGGAAACAAAGGGAAGCTGCTGTTTTGGCTCTCGGCGCTATTGCTGAAGGCTGCATGAATGGTCTTTACC
| ||| |||| | | || | | | || | | || | | | |||| || ||||| || || || ||| ||| ||||| || |||||| | |||||||||||||| |||||||| || ||||| | |||||| ||||| ||||||||||| |
gtatatatgagacatctatgaaaactatattatgacgctcgtttctccgcaaggctttctttttatgaggatatactaaaatttctgaggatttgtgcagGCTAAGTTGTCTGCTGGTGGGGATGATGCTTGGAAAGATAGGGAAGCTGCTGTCTTGGCTCTTGGTGCTATAGGTGAAGGTTGCATCAATGGTCTTTATC
upper sequence: AT2G16950.1 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: GLYMA20G24040.1 (Glycine max), 3'ss of exon 12
----------gtaaatgttattcatct-tggtctttttgaaatgaacacaatta----gctaaaccctgttcttctaag---------------ctgcagAAAAATTTATCAGCTTCTGGTGATGAGGCCTGGAAACAAAGGGAAGCTGCTGTTTTGGCTCTCGGCGCTATTGCTGAAGGCTGCATGAATGGTCTTTACC
|| |||| | ||||| || | | |||| |||| || | | | || || | || |||||| || ||||| ||| ||| ||||| || |||||| | |||||||||||||| |||||||| || ||||| | ||||| ||||| ||||||||||| |
acataggtgtatatatgtaagacatctatgaaaactatattatgacgctaatttctctgcaagcctttctttttatgaggccattctaaaatttctgcagGCTAAGTTATCTGCTGGTGGGGATGATGCTTGGAAAGATAGGGAAGCTGCTGTCTTGGCTCTTGGTGCTATAGGCGAAGGTTGCATCAATGGTCTTTATC
upper sequence: AT2G16950.1 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: Vv03s0038g02830.t01 (Vitis vinifera), 3'ss of exon 12
------------------------gtaaatgttattcatcttggtctttttgaaatgaacacaattagctaaaccctgttcttctaag------ctgcagAAAAATTTATCAGCTTCTGGTGATGAGGCCTGGAAACAAAGGGAAGCTGCTGTTTTGGCTCTCGGCGCTATTGCTGAAGGCTGCATGAATGGTCTTTACC
|| ||| | | | ||| || || | |||| || | | || | |||||| || |||||| || ||| ||||||| |||||||| ||||||||||||| ||||| ||||| || ||| | ||||| || ||||| | ||||||||| |
aaatagaagttaaaagttatatgtgtctcaaccattagtttcacttctttgcaaccatttacttgtgtttaaaatatgatttccttaaaaatttctgcagGCTAAGTTATCAACTACTGATGATGAGACCTGGAAAGAAAGGGAAGCTGCCGTTTTAGCTCTTGGTGCTGTAGCTGAGGGTTGCATTACTGGTCTTTATC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttggtctttttgaaatgaacacaattagctaaaccctgttcttctaagctgcagAAAAATTTATCAGCTTCTGGTGATGAGGCCTGGAAACAAAGGGAAGCTGCTGTTTTGGCTCTCGGCGCTATTGCTGAAGGCTGCATGAATGGTCTTTACC
agctaaa putative branch site (score: 3)
ccctgttcttct CT-rich tract
tttttgaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaatgttattcatcttggtctttttgaaatgaacacaattagctaaaccctgttcttctaagctgcagAAAAATTTATCAGCTTCTGGTGATGAGGCCTGGAAACAAAGGGAAGCTGCTGTTTTGGCTCTCGGCGCTATTGCTGAAGGCTGCATGAATGGTCTTTACC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG