Sequence
atgc intronic sequence ATGC exonic sequence...agccaccccagttcagtggctagcattttccctggcaccacttttatgttactgtattattatacttgctgaaaattctttgtttatttttttattgcagCTATCAGCTTCAGAAATACAAAAATGCTGGTTCATTTGTTCTTCCAGTGGATCCTAAGGACAAGGAAACATGGGGTGATAGTGAGCACAGGCTTGCATAT
Basic information
species | Glycine max |
transcript | GLYMA11G20460.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G20460.1 (Glycine max), 3'ss of exon 1
lower sequence: AT5G60700.1 (Arabidopsis thaliana), 3'ss of exon 1
---agccaccccagttcagtggctagcattttccctggcaccacttttatgttactgtattattatacttgctgaaaattctttgtttatttttttattgcagCTATCAGCTTCAGAAATACAAAAATGCTGGTTCATTTGTTCTTCCAGTGGATCCTAAGGACAAGGAAACATGGGGTGATAGTGAGCACAGGCTTGCATAT
| | | | ||| ||| | | || |||| ||||| | || || | | | | || ||| | | | | | |||||| ||||||||||||||||||| |||||| ||||| ||||||||||| || ||||| || || ||||| || ||||| |||||||| |||||| | || |||
aaaatagattcaaattctctggggaaaagttataaaaatggattttttttgttatgaagtaataattgtggttttgattttttt---tgtgtgtgttttgcagTTATCAGCTTCAGAAATACAGAAATGCAGGTTCGTTTGTTCTTCCCGTTGATCCAAATGATAAGGAGACTTGGGGAGATAGTGAACACAGGTTAGCTTAT
upper sequence: GLYMA11G20460.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv06s0004g02690.t01 (Vitis vinifera), 3'ss of exon 1
-agccaccccagtt-cagtggctagcattttccctggcaccacttttatgttactgtattattatacttgctgaaaattctttgtttatttttttattgcagCTATCAGCTTCAGAAATACAAAAATGCTGGTTCATTTGTTCTTCCAGTGGATCCTAAGGACAAGGAAACATGGGGTGATAGTGAGCACAGGCTTGCATAT
| | | | || || | | || | |||||| || || | || || ||| ||| || | | | || | ||||||||||||||||||| |||| | ||||||| ||||| |||||||| || ||||| || ||||||||||| |||||||| ||||| ||||||||||| |||
ctgatatttggatagtgacaggcagaatactgatgagtacttcctttatgactctaccttctgattct-gcttctaatgattggaacctctaattgt-gcagCTATCAGCTTCAGAAGTACAGAGATGCTGGCTCATTCGTTCTTCCTGTTGATCCAAATGACAAGGAAACTTGGGGTGACAGTGAACACAGGCTTGCTTAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgttactgtattattatacttgctgaaaattctttgtttatttttttattgcagCTATCAGCTTCAGAAATACAAAAATGCTGGTTCATTTGTTCTTCCAGTGGATCCTAAGGACAAGGAAACATGGGGTGATAGTGAGCACAGGCTTGCATAT
ttctttgtttattttt CT-rich tract
tgaaaattctttgttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agccaccccagttcagtggctagcattttccctggcaccacttttatgttactgtattattatacttgctgaaaattctttgtttatttttttattgcagCTATCAGCTTCAGAAATACAAAAATGCTGGTTCATTTGTTCTTCCAGTGGATCCTAAGGACAAGGAAACATGGGGTGATAGTGAGCACAGGCTTGCATAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- ccacccc
- - - - - - - -gtggcta
- - - - - - - - - - - - - - -ccctggc
- - - - - - - - - - - - - - - - - - accactt
- - - - - - - - - - - - - - - - - - - - - - - -gttactg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgctgaa