Sequence
atgc intronic sequence ATGC exonic sequence...ttacagttgacccctgcgcgattacatgcccacctaaaatttgaaaagttaattttatgcaacattagttagttaactattgttttgaatattgttacagAAATATCTGCAATCTACAACTGTTAGAGTGGAGGAGATGAGAGTGAAGAGACAGGACGCGGAACAGTGGATGTCCCACCGTATGCTACCTGAGAACTTGA
Basic information
species | Glycine max |
transcript | GLYMA03G41780.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G41780.1 (Glycine max), 3'ss of exon 5
lower sequence: AT2G46430.1 (Arabidopsis thaliana), 3'ss of exon 5
ttacagttgacccctgcgcgattacatgcccacctaaaatttgaaaagttaattttatgcaacattagttagttaactattgttttgaatattgttacagAAATATCTGCAATCTACAACTGTTAGAGTGGAGGAGATGAGAGTGAAGAGACAGGACGCGGAACAGTGGATGTCCCACCGTATGCTACCTGAGAACTTGA
|| | | | || | | ||||| | || | || | || | ||| |||| || | ||| |||||||| ||||||| || ||||| ||||| ||||| ||||||||||| || || || || || |||||||| || || ||| | || || | |||
-----gtaatcatttctcttctcctttgagctcttaaaacaaggaatatccatat-atatagtcttaaagagtt--ctgtgattt-----------gtagAAATATTTGCAATCAACTACTGTAAGAGTTGAGGAAATGAGAGTGAAAAGGAGAGATGCAGAGCAATGGATGTCTCATCGGATGTTGCCAGACGATCTGA
upper sequence: GLYMA03G41780.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv15s0046g00980.t01 (Vitis vinifera), 3'ss of exon 6
ttacagttgacccctgcgcgattacatgc-ccacctaaaatttgaaaagttaattttatgcaacattagttagttaactattgt---tttgaatattgttacagAAATATCTGCAATCTACAACTGTTAGAGTGGAGGAGATGAGAGTGAAGAGACAGGACGCGGAACAGTGGATGTCCCACCGTATGCTACCTGAGAACTTGA
|| | | ||| | || | || | | | || ||||||| || | | || | || | |||| | |||| | |||||||||||||||||||||| |||||||||||| | || ||||||||||| || || ||||| || || ||||||||| | || || |||| ||||| | |||
---catctagctcctactggagccaaggcactaattctcatgaaccccaccaatttta-gctaaagtactaagattactaaagcatgtttgtgtgctgttacagAAATATCTGCAATCCACAACTGTTAGAATCGAAGAGATGAGAGTAAAAAGGCAGGATGCAGAGCAGTGGATGGCTCATCGATTGCTCCCTGACCCCCTGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aagttaattttatgcaacattagttagttaactattgttttgaatattgttacagAAATATCTGCAATCTACAACTGTTAGAGTGGAGGAGATGAGAGTGAAGAGACAGGACGCGGAACAGTGGATGTCCCACCGTATGCTACCTGAGAACTTGA
agttaac putative branch site (score: 3)
ttaactattgttttga 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttacagttgacccctgcgcgattacatgcccacctaaaatttgaaaagttaattttatgcaacattagttagttaactattgttttgaatattgttacagAAATATCTGCAATCTACAACTGTTAGAGTGGAGGAGATGAGAGTGAAGAGACAGGACGCGGAACAGTGGATGTCCCACCGTATGCTACCTGAGAACTTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - cccctgc
- - - - - - - - - - - - catgccc
- - - - - - - - - - - - - - - - - - - - - - - - - - - -tatgcaa