Sequence
atgc intronic sequence ATGC exonic sequence...tattggaatactatgtagggtcaaacttcacatattctttgaggctaatatgtcttgcaaatctgaaattactattcttttatatgatgcttttatgtagTAACATTTAGTCGGATAGATCCCGGAGGCAAACTTGTTATGGGTTTCAGAAAGGCATCTAATTCTACAGATACACAG
Basic information
species | Glycine max |
transcript | GLYMA18G05840.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G05840.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os07g48200.1 (Oryza sativa), 3'ss of exon 6
tattggaatactatgtagggtcaaacttcacatattctttgaggctaatatgtcttgcaaatctgaaa-ttactattcttttatatgatgctt-----ttatgtagTAACATTTAGTCGGATAGATCCCGGAGGCAAACTTGTTATGGGTTTCAGAAAGGCATCTAATTCTACAGATACACAG
|| ||| | || || | | | || | | |||| | | | ||| || || ||| |||| ||| | | ||| || |||||||||||||| || ||||| |||||||||||||| ||| | ||||| | || || | |
------ggtaatatatttaaacatgctaagtagaattgttccatattaaatgtgatctcactgggaaggttttcatacttaatggtgattcttgttttcttttcagTGACTTTTAGTCGGATAGAACCTGGAGGGAAACTTGTTATGGGCTTCCGGAAGGCCACAAACACTGTCAGTTTGCCA
upper sequence: GLYMA18G05840.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G158162_T03 (Zea mays), 3'ss of exon 6
-tattggaatactatgtagggtcaaacttcacatattctttgaggctaatatgtcttgcaaatctgaaattactattcttttatatgatgcttttatgtagTAACATTTAGTCGGATAGATCCCGGAGGCAAACTTGTTATGGGTTTCAGAAAGGCATCTAATTCTACAGATACACAG
|| ||| || | | | | ||| || | | || || | | | | | |||| | || | |||| || ||| || |||||||| |||||||| ||||| |||||||||||||| || | ||||| | ||| || | |
tccatgctatagtaaattacgctgagtagtat-tatgtcatgtgtcccatgctctctggatgttgtttactggaacctttttttgtggttattttctgcagTGACCTTTAGTCGTATAGATCCTGGAGGGAAACTTGTTATGGGCTTTCGGAAGGCCACAAATACTGTCAGTCTGCCA
upper sequence: GLYMA18G05840.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G172621_T01 (Zea mays), 3'ss of exon 6
------tattggaatactatgtagggtcaaacttcacatattctttgaggctaatatgtcttgcaaatctgaaattactattcttttatatgatgcttttatgtagTAACATTTAGTCGGATAGATCCCGGAGGCAAACTTGTTATGGGTTTCAGAAAGGCATCTAATTCTACAGATACACAG
|| | | || || | || | ||| ||||| || |||| | | ||| ||| | |||| | || | |||| || ||| || |||||||| |||||||| ||||| |||||||||||||| || | ||||| | ||| || | |
atgctatagtaaattatgctgcatagtactatgtcatgtattccatgctctctgaatgttgttta---ctggaatct---tctttttgtgtggttattttctgcagTGACCTTTAGTCGTATAGATCCTGGAGGGAAACTTGTTATGGGCTTTCGGAAGGCCACAAATACTGTCAGTCTGCCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taatatgtcttgcaaatctgaaattactattcttttatatgatgcttttatgtagTAACATTTAGTCGGATAGATCCCGGAGGCAAACTTGTTATGGGTTTCAGAAAGGCATCTAATTCTACAGATACACAG
ggctaat putative branch site (score: 3)
tgctttt putative PPT
aaatctgaaattacta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tattggaatactatgtagggtcaaacttcacatattctttgaggctaatatgtcttgcaaatctgaaattactattcttttatatgatgcttttatgtagTAACATTTAGTCGGATAGATCCCGGAGGCAAACTTGTTATGGGTTTCAGAAAGGCATCTAATTCTACAGATACACAG
- - - - - -tatgtag
- - - - - - - - - - - - acttcac
- - - - - - - - - - - - - - - - - - - ttgaggc
- - - - - - - - - - - - - - - - - - - - - - - - - - -cttgcaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -atgatgc