Sequence
atgc intronic sequence ATGC exonic sequence...tttttggggtggagggagggggtttgcatcttgctttgtatatgtcaatccttttttgtcataatgtcgtccaagaaaatgacatgattttcattctcagAGATGGACCGGAGTGTGAAGCGAATGTTGAAGCTGATAGAAGAGGATGCAGATTCATTTGCCAAAAAAGCTGAAATGTATTATCAGAAGAGGCCAGAATT
Basic information
species | Glycine max |
transcript | GLYMA14G38570.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA14G38570.1 (Glycine max), 3'ss of exon 2
lower sequence: AT5G58320.3 (Arabidopsis thaliana), 3'ss of exon 1
-------------------------tttttggggtggagggag------ggggtttgcatcttgctttgtatatg-tcaatccttttttgt--------cataatgtcgtccaagaaaatg----acatgattttcattctcagAGATGGACCGGAGTGTGAAGCGAATGTTGAAGCTGATAGAAGAGGATGCAGATTCATTTGCCAAAAAAGCTGAAATGTATTATCAGAAGAGGCCAGAATT
|| || || | | || || | | | | || || | | || ||||| | | || | ||||| ||| |||| | || ||||||||||||||||| ||||| || ||| ||||| ||||||| |||||||||||||| ||||| || || || || |||||||| ||| || || || |
gtgagtccattcacattatgtcgttttcatgtaatgaaaataccttattaggcttagggtttcccaaattaggtggttagtcttttttcataaaggaaataaaaaatatgccaagtttatgttttgtgtgatgattatgatcagAGATGGACCGGAGCGTGAAACGGATGGTGAAGTTGATAGAGGAGGATGCAGATTCTTTTGCTAAGAAGGCAGAGATGTATTACCAGTCAAGACCTGAGCT
upper sequence: GLYMA14G38570.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv06s0004g08170.t01 (Vitis vinifera), 3'ss of exon 4
--------tttttggggtggagggagggggtttgcatcttgctttgtatatgtcaatccttttttgtcataatgtcgtccaagaaaatgacatgattttcattctcagAGATGGACCGGAGTGTGAAGCGAATGTTGAAGCTGATAGAAGAGGATGCAGATTCATTTGCCAAAAAAGCTGAAATGTATTATCAGAAGAGGCCAGAATT
|| ||| | | | | | || || |||| || | || | |||| ||| || || | | | | | |||||||||||||| ||||||||| || |||||||||||||| |||||||||| ||||||||||| ||||| ||||| ||||||||||||||||| || |||||
ttgtctcattgttgagacaaaataatgttttgccaattaccctgtgtaaattttaaaacagtttttgaatag--------aaactgataaaagggtacttggcctcagAGATGGACCAGAGTGTGAAACGGATGTTGAAGCTGATTGAAGAGGATGGGGATTCATTTGCAAAAAAGGCTGAGATGTATTATCAGAAGAGACCTGAATT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.caatccttttttgtcataatgtcgtccaagaaaatgacatgattttcattctcagAGATGGACCGGAGTGTGAAGCGAATGTTGAAGCTGATAGAAGAGGATGCAGATTCATTTGCCAAAAAAGCTGAAATGTATTATCAGAAGAGGCCAGAATT
ttttcattctc CT-rich tract
ttttttgtcataat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttttggggtggagggagggggtttgcatcttgctttgtatatgtcaatccttttttgtcataatgtcgtccaagaaaatgacatgattttcattctcagAGATGGACCGGAGTGTGAAGCGAATGTTGAAGCTGATAGAAGAGGATGCAGATTCATTTGCCAAAAAAGCTGAAATGTATTATCAGAAGAGGCCAGAATT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - gggtgga
- - - - - - -gggaggg
- - - - - - - - - - - tttgcat
- - - - - - - - - - - - - - -cttgctt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aagaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgacatg