Sequence
atgc intronic sequence ATGC exonic sequencegtgcagtgccaaattcaacaagttcattctttgtttctgttactggatttggactagtttttttttttttttcatttttcatttttttgatggttcttgtgcagTTGGGGAATTTCATTCACTACATGGCTACCTTTGTTTCTGGTTTTGTTGTGGGTTTCACTGCTGTGTGGCAATTGGCTTTGGTCACTCTTGCTGTTGTCC
Basic information
species | Glycine max |
transcript | GLYMA19G36820.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G36820.1 (Glycine max), 3'ss of exon 3
lower sequence: AT2G36910.1 (Arabidopsis thaliana), 3'ss of exon 3
gtgcagtgccaaattcaacaagttcattctttgtttctgttactggatttggactagtttttttttttttttcatttttcatttttttgatggttcttgtgcagTTGGGGAATTTCATTCACTACATGGCTACCTTTGTTTCTGGTTTTGTTGTGGGTTTCACTGCTGTGTGGCAATTGGCTTTGGTCACTCTTGCTGTTGTCC
||| | |||| || | | || | |||| || || || || | | ||||||| | ||| ||| | || |||||||| || |||||||| || ||||||||||| || | |||||||||||||| ||||||||| | ||||| || ||||| || || || |
-----------------gtaag---aatcttca----aattcttagtctt---tttgtttcttcttccttatctgatctgtttttttttgggaatct----cagCTTGGTAATTTCATCCATTACATGGCGACTTTTGTTTCTGGATTCATCGTGGGTTTCACTGCGGTGTGGCAACTAGCTTTAGTGACTCTCGCGGTGGTTC
upper sequence: GLYMA19G36820.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv08s0007g05060.t01 (Vitis vinifera), 3'ss of exon 3
gtgcagtgccaaattcaacaagttcattctttgtttctgttactggatttggactagtttttttttttttttcatttttcatttttttgatggttcttgtgc--agTTGGGGAATTTCATTCACTACATGGCTACCTTTGTTTCTGGTTTTGTTGTGGGTTTCACTGCTGTGTGGCAATTGGCTTTGGTCACTCTTGCTGTTGTCC
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--gtgaaaccaaaacctatgtctgttctccacatttct-ttcttggttttgtatttgataattagctctgaatagacctggttttccctgtgttttctgggcgtagTTGGGTAATTTCATTCACTACATGGCAACATTTGTGTCTGGATTTGTAGTGGGTTTCACTGCTGTGTGGCAATTGGCACTTGTCACTCTTGCTGTGGTTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tggactagtttttttttttttttcatttttcatttttttgatggttcttgtgcagTTGGGGAATTTCATTCACTACATGGCTACCTTTGTTTCTGGTTTTGTTGTGGGTTTCACTGCTGTGTGGCAATTGGCTTTGGTCACTCTTGCTGTTGTCC
ttttgat putative branch site (score: 4)
ttcttgt putative PPT
tagttttttttttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgcagtgccaaattcaacaagttcattctttgtttctgttactggatttggactagtttttttttttttttcatttttcatttttttgatggttcttgtgcagTTGGGGAATTTCATTCACTACATGGCTACCTTTGTTTCTGGTTTTGTTGTGGGTTTCACTGCTGTGTGGCAATTGGCTTTGGTCACTCTTGCTGTTGTCC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT