Sequence
atgc intronic sequence ATGC exonic sequence...gcagatttgtgagtcgttgtaaatattttgacacctattttggattccaacagataaaaaaaaaacagcatattttactaattacatgtcctatttacagGACTTACCAGAGCATCAGCGAGGAGATGCAGTGAGCAGCATGGTGTATGAAGCAAATGCAAGAGTGAGAGACCCTGTCTATGGCTGTGTAGGGGCCATCT
Basic information
species | Glycine max |
transcript | GLYMA20G02850.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G02850.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv00s0125g00290.t01 (Vitis vinifera), 3'ss of exon 1
gcagatttgtgagtcgttgtaaatattttgacacctattttggattccaacagataaaaaaa-aaacagcat--attttactaattacatgtcctatt---tacagGACTTACCAGAGCATCAGCGAGGAGATGCAGTGAGCAGCATGGTGTATGAAGCAAATGCAAGAGTGAGAGACCCTGTCTATGGCTGTGTAGGGGCCATCT
| | ||| | |||| | ||||| || || | ||||| ||| ||| | | | |||| | | | | | | | | ||||| | || | | ||| |||||||||||||||| |||||||||||||||||||||||||| || | || || || ||||| || || |||||||| |
-----ggtaggtgtcat-gtaactgaccctgcacctgcacccccttggaaaaaataaataaataaatatttttgaacttacaagatttagattcaaatggatgcagGAGCTGCCGGTTGAGCAGAGAGGAGATGCAGTGAGTAGCATGGTGTATGAAGCAAATGCAAGGGTTCGGGATCCGGTTTATGGATGCGTTGGGGCCATTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tccaacagataaaaaaaaaacagcatattttactaattacatgtcctatttacagGACTTACCAGAGCATCAGCGAGGAGATGCAGTGAGCAGCATGGTGTATGAAGCAAATGCAAGAGTGAGAGACCCTGTCTATGGCTGTGTAGGGGCCATCT
tactaat putative branch site (score: 1)
tcctattt putative PPT
ataaaaaaaaaacagc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gcagatttgtgagtcgttgtaaatattttgacacctattttggattccaacagataaaaaaaaaacagcatattttactaattacatgtcctatttacagGACTTACCAGAGCATCAGCGAGGAGATGCAGTGAGCAGCATGGTGTATGAAGCAAATGCAAGAGTGAGAGACCCTGTCTATGGCTGTGTAGGGGCCATCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - tgacacc
- - - - - - - - - - - - - - - - - - - - - - -tccaaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -acatgtc