Sequence
atgc intronic sequence ATGC exonic sequencegttaggaaaaagctcttcagctatgtgttctaatttctatcttctgttatgccattatgttgtatctctcacagtctcaccatgagttttcttcagATTAGAAGTCATGCCCAGAAGTACTTCTTGAAAGTTCAAAAGAGCGGGACAGTAGCACATGTGCCTCCTCCTCGGCCTAAGCGCAAAGCTTCTCATCCTT
Basic information
species | Glycine max |
transcript | GLYMA19G36170.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G36170.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv08s0040g03220.t01 (Vitis vinifera), 3'ss of exon 2
-gttaggaaaaagctcttcagctatgtgttctaatttctatcttctgttatgccattatgttgtatctctcacagtctcaccatgagttttc----ttcagATTAGAAGTCATGCCCAGAAGTACTTCTTGAAAGTTCAAAAGAGCGGGACAGTAGCACATGTGCCTCCTCCTCGGCCTAAGCGCAAAGCTTCTCATCCTT
| | | | | | ||| | | ||| ||| |||| | | | | | | | | | | ||||| || | |||||||| |||||||||||||| ||||| || || || ||||||| |||||||||||||||||||| || ||||| || |||||||||||| ||||||||
tgctctgtgtgctgtaatttgttattaagtaaagtttggctctattgtt-catggtggtttcatttatttagtttttttatactgagtatttgcattgcagATTAGGAGTCATGCCCAGAAATACTTTTTAAAGGTCCAAAAGAATGGGACAGTAGCACATGTGCCACCGCCTCGCCCAAAGCGCAAAGCTATTCATCCTT
upper sequence: GLYMA19G36170.1 (Glycine max), 3'ss of exon 3
lower sequence: EFJ36434 (Selaginella moellendorffii), 3'ss of exon 2
gttaggaaaaagctcttcagctatgtgttctaatttctatcttctgtt-atgccattatgttgtatctctcacagtctcaccatgagttttcttcagATTAGAAGTCATGCCCAGAAGTACTTCTTGAAAGTTCAAAAGAGCGGGACAGTAGCACATGTGCCTCCTCCTCGGCCTAAGCGCAAAGCTTCTCATCCTT
| |||| || | | | || ||| || | | | || ||| | | |||||||||||||||||||||||||| || |||||||| || |||| || || | || ||| || |||||||| ||||| ||||| ||| || |||| || |
---------------------------gtgaaattcctttgctttattcatgttctt-cgcggggatttagttcgttagtgtgtga-caatttccagATTAGAAGTCATGCCCAGAAGTATTTTTTGAAAGTCCAGAAGAATGGAACTGGAGAACACGTTCCTCCTCCACGGCCGAAGCGTAAATCTGCTCAACCAT
upper sequence: GLYMA19G36170.1 (Glycine max), 3'ss of exon 3
lower sequence: EFJ04991 (Selaginella moellendorffii), 3'ss of exon 2
gttaggaaaaagctcttcagctatgtgttctaatttctatcttctgtt-atgccattatgttgtatctctcacagtctcaccatgagttttcttcagATTAGAAGTCATGCCCAGAAGTACTTCTTGAAAGTTCAAAAGAGCGGGACAGTAGCACATGTGCCTCCTCCTCGGCCTAAGCGCAAAGCTTCTCATCCTT
| |||| || | | | || ||| || | | | || ||| | | |||||||||||||||||||||||||| || |||||||| || |||| || || | || ||| || |||||||| ||||| || || ||| || |||| || |
---------------------------gtgaaattcctttgctttattcatgttctt-cgcggggatttagttcgttagtgtgtga-caatttccagATTAGAAGTCATGCCCAGAAGTATTTTTTGAAAGTCCAGAAGAATGGAACTGGAGAACACGTTCCTCCTCCACGGCCGAAACGTAAATCTGCTCAACCAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttctgttatgccattatgttgtatctctcacagtctcaccatgagttttcttcagATTAGAAGTCATGCCCAGAAGTACTTCTTGAAAGTTCAAAAGAGCGGGACAGTAGCACATGTGCCTCCTCCTCGGCCTAAGCGCAAAGCTTCTCATCCTT
gtctcac putative branch site (score: 3)
ttttcttc putative PPT
attatgtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttaggaaaaagctcttcagctatgtgttctaatttctatcttctgttatgccattatgttgtatctctcacagtctcaccatgagttttcttcagATTAGAAGTCATGCCCAGAAGTACTTCTTGAAAGTTCAAAAGAGCGGGACAGTAGCACATGTGCCTCCTCCTCGGCCTAAGCGCAAAGCTTCTCATCCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG