Sequence
atgc intronic sequence ATGC exonic sequence...tctcaaaaataacattctcttattgttttagatgtctgccaaatgaaataagttgtctctagggaagttttaaatggaaatggaattttgtatatttcagGAAAAGAAGAGTATCCGACCAACTTTTTCAGCTGAGCGAATATTTGGCGGCACTGTATTGGCAATGTGCTCAAATGATTTCATCTGCTTTTACGATTGGG
Basic information
species | Glycine max |
transcript | GLYMA08G22140.1 |
intron # | 12 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G22140.1 (Glycine max), 3'ss of exon 12
lower sequence: AT3G15980.2 (Arabidopsis thaliana), 3'ss of exon 12
--------------------tctcaaaaataacattctctt-----attgttttagatgtctgccaaatgaaataagttgtctctaggga-agttttaaatgga----------aatggaattttgtatatttcagGAAAAGAAGAGTATCCGACCAACTTTTTCAGCTGAGCGAATATTTGGCGGCACTGTATTGGCAATGTGCTCAAATGATTTCATCTGCTTTTACGATTGGG
|| | ||| ||| | || || || ||| || |||| | | | | | ||| || || | | | ||| ||| || | || | |||||||||| |||||||||||| || ||||| ||||||||| || ||||| || || | || |||||||| || ||||||||||||||||| || |||||||
gtttgctattctcattatggccttactcatactattttgttggagtatgattctagg-gttgaagaaattgcagatgcttgcaatagagacagctattactggcttattatattaataaaaggtggtgt-tttcagGAAAGGAAGAGTATCCGGCCTACTTTCTCAGCTGAGAAGATTTTTGGAGGAACCTTGTTAGCAATGTGTTCGAATGATTTCATCTGCTTCTATGATTGGG
upper sequence: GLYMA08G22140.1 (Glycine max), 3'ss of exon 12
lower sequence: AT1G52360.2 (Arabidopsis thaliana), 3'ss of exon 12
------------------------tctcaaaaataacattc--tcttattgttttagatgtctgccaaatgaaataagttgtctctaggga-agttttaaatggaaatggaatttt------gtatattt-cagGAAAAGAAGAGTATCCGACCAACTTTTTCAGCTGAGCGAATATTTGGCGGCACTGTATTGGCAATGTGCTCAAATGATTTCATCTGCTTTTACGATTGGG
||| | | ||| | | | | | | ||| | || | | || | | || || | || ||| ||| || || |||| |||||||||| ||||||||| || ||||||||||||||| || ||||| || || | || || ||||| |||| |||||||||||||||||| |||||||
gtttctaaatctttttctctctgatctaagccgttctgttcaaccctgtatctatggttgttggaagtattattgatactggtcatggagatagctatattcggatctggctcattcagaaaatacattttcagGAAAAGAGGAGTATCCGCCCTACTTTTTCAGCTGAGAAGATCTTTGGAGGAACCTTGTTAGCTATGTGTTCAAGTGATTTCATCTGCTTTTATGATTGGG
upper sequence: GLYMA08G22140.1 (Glycine max), 3'ss of exon 12
lower sequence: Vv09s0002g04810.t01 (Vitis vinifera), 3'ss of exon 12
tctcaaaaataacattctcttattgttttagatgtctgccaaatg-aaataagttgtctctagggaagttttaaatggaaatgg-aattttgtatatttcagGAAAAGAAGAGTATCCGACCAACTTTTTCAGCTGAGCGAATATTTGGCGGCACTGTATTGGCAATGTGCTCAAATGATTTCATCTGCTTTTACGATTGGG
| | || | | | | ||| | ||| | ||||| ||||| || | || | || || | | | | | || ||||||||||||| |||| |||||||||| ||||||||||||| || ||||| || ||| ||||||||||||||||||||||||| || || || || || ||||
--tattgcctgccactgttgtctggttacaagtgttaggtaaatgcaaatatattcctgttcggagaaattcaacagagtttaatgaagtggcatctttcagGAAAAGAGGAGTGTCCGACCAACATTTTCAGCTGAGCATATTTTTGGAGGAACTTTATTGGCAATGTGCTCAAATGATTTTATTTGTTTCTATGACTGGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaataagttgtctctagggaagttttaaatggaaatggaattttgtatatttcagGAAAAGAAGAGTATCCGACCAACTTTTTCAGCTGAGCGAATATTTGGCGGCACTGTATTGGCAATGTGCTCAAATGATTTCATCTGCTTTTACGATTGGG
aattttgtatatttca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tctcaaaaataacattctcttattgttttagatgtctgccaaatgaaataagttgtctctagggaagttttaaatggaaatggaattttgtatatttcagGAAAAGAAGAGTATCCGACCAACTTTTTCAGCTGAGCGAATATTTGGCGGCACTGTATTGGCAATGTGCTCAAATGATTTCATCTGCTTTTACGATTGGG
- - -aaaataa
- - - - - - cattctc
- - - - - - - - - - - - - - - - - -ctgccaa