Sequence
atgc intronic sequence ATGC exonic sequence...taattgcttaggttgctttcttttacttttcctacctctctattgaattagatagctttgatatttgtcactccatttgtaagttttttttatctcacagGAGATATACTCGGTGAAGTTGCCTGGAAATCCCAAATTGGGTGAAGGGAAGCCCGAGAATCAAAATCATGCAATTGTATTTACGCGTGGAAATGCAGTCC
Basic information
species | Glycine max |
transcript | GLYMA10G44150.2 |
intron # | 35 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G44150.2 (Glycine max), 3'ss of exon 35
lower sequence: LOC_Os03g02756.1 (Oryza sativa), 3'ss of exon 1
---taattgcttaggttgctttcttttacttttcctacctctctattgaattagatagctttgatatttgtcactccatttgtaagttttttttatctcacagGAGATATACTCGGTGAAGTTGCCTGGAAATCCCAAATTGGGTGAAGGGAAGCCCGAGAATCAAAATCATGCAATTGTATTTACGCGTGGAAATGCAGTCC
| || || | | | | | | || || | || ||| | | |||| | || || | | || ||||| || || || | || |||||||| ||| || ||||||| |||||||| || || ||||||||||| || |||| || |||||||||||||| |
cccttgttaagtaaatatcatcagctaaagtagtttatatca-tgtttggttatttgagtaacgtattaattcttctatgcaccaaataacttggct--gcagGAAATTTATTCCATTAAATTGCCTGGCAATTTTAAGCTGGGTGAGGGGAAGCCAGAAAACCAAAATCATGCCATAATATTCACCCGTGGAAATGCAGTGC
upper sequence: GLYMA10G44150.2 (Glycine max), 3'ss of exon 35
lower sequence: Vv06s0004g01200.t01 (Vitis vinifera), 3'ss of exon 32
-------taattgcttaggttgctttcttttacttttcctacctctctattgaattagatagctttgatatttgtcactccatttgtaagttttttttatctcacagGAGATATACTCGGTGAAGTTGCCTGGAAATCCCAAATTGGGTGAAGGGAAGCCCGAGAATCAAAATCATGCAATTGTATTTACGCGTGGAAATGCAGTCC
| ||| || | ||| | | | || || ||| | ||| || | |||||| | || | || | || | | | ||||| |||||||| | || || || |||||||| ||| | |||||||| || || || |||||||| |||||| || ||||||| |||||||||||| | |
ctggaggtctttgtttgaacactctaatttcaaataacttatctatctgtacttttatttattt-----atttgttatctcactgtta--tcagttatgtttttcagGACATATACTCTATCAAATTACCAGGAAATCCTAAACTTGGTGAAGGAAAACCTGAAAATCAAAACCATGCAGTTATATTTACTCGTGGAAATGCAATTC
upper sequence: GLYMA10G44150.2 (Glycine max), 3'ss of exon 35
lower sequence: PP1S88_136V6.1 (Physcomitrella patens), 3'ss of exon 33
-------------taattgcttaggttgctttcttttacttttcctacctctctattgaattagatagctttgatatttgtcactccatttgtaagttttttttatctcacagGAGATATACTCGGTGAAGTTGCCTGGAAATCCCAAATTGGGTGAAGGGAAGCCCGAGAATCAAAATCATGCAATTGTATTTACGCGTGGAAATGCAGTCC
|| | || | | |||||||| || |||| || | |||||| | ||| | | |||| | |||| || ||||| |||| || | ||| | || ||| | || | |||||||| || ||||||||||||||||||||||| | || ||||||||| || |||
tgttatcatctcgtagctactaaacgaatggtattttacttctcac----tgctatcgagacaacaagctttaaag--tgtta----aggggtaaactattttaat---gcagGAAGTATATTCCATTAAGCTCCCCGGAGACGTTAAGCTTGGTGAAGGAAAACCCGAGAATCAAAATCATGCAATAATTTTCACGCGTGGAGATTGCATCC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aattagatagctttgatatttgtcactccatttgtaagttttttttatctcacagGAGATATACTCGGTGAAGTTGCCTGGAAATCCCAAATTGGGTGAAGGGAAGCCCGAGAATCAAAATCATGCAATTGTATTTACGCGTGGAAATGCAGTCC
ctttgat putative branch site (score: 5)
ttttttttatctcac putative PPT
atttgtaagttttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
taattgcttaggttgctttcttttacttttcctacctctctattgaattagatagctttgatatttgtcactccatttgtaagttttttttatctcacagGAGATATACTCGGTGAAGTTGCCTGGAAATCCCAAATTGGGTGAAGGGAAGCCCGAGAATCAAAATCATGCAATTGTATTTACGCGTGGAAATGCAGTCC
- - tgcttag
- - - - - - -tgctttc
- - - - - - - - - - - - - - - - - cctctct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cactcca