Sequence
atgc intronic sequence ATGC exonic sequencegtagtttgaagaaattagagttttaattttatttttcttgtaattttaattttctgtttattttatatttggttgttgtaattattattagtgtttgtgcagATAGCTGTGGAGAAGTTTAGTGAAGCAACTGTTGGATACAGGCTCAATAGAGAAGTTGCTGAGAGATGGGTTCAGTTGTTTTATACTCACTATTTCATTG
Basic information
species | Glycine max |
transcript | GLYMA05G24070.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G24070.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv14s0219g00280.t01 (Vitis vinifera), 3'ss of exon 4
gtagtttgaagaaattagagttttaattttatttttcttgtaattttaattttctgtttattttatatttggttgttgtaattattattagtgtt--tgtgcagATAGCTGTGGAGAAGTTTAGTGAAGCAACTGTTGGATACAGGCTCAATAGAGAAGTTGCTGAGAGATGGGTTCAGTTGTTTTATACTCACTATTTCATTG
| || ||| || | | | | || | ||| | | |||| | | | ||| | || || | ||||||| |||||||||||||||||||||||||| ||||||||||| || ||||| |||| ||||||||||||| ||||| ||||| |||||||| |
-----------------gtaattccgctttgttcatatgatcaattcctacaccatcccattccacagttggccctactcaacatt-tgagacttgatatgcagATCGCTGTGGAGAAGTTTAGTGAAGCAACAGTTGGATACAGAGAGAACAGAGATATTGCAGAGAGATGGGTTCGACTGTTTAGTACTCCATATTTCATGG
upper sequence: GLYMA05G24070.1 (Glycine max), 3'ss of exon 7
lower sequence: EFJ07277 (Selaginella moellendorffii), 3'ss of exon 5
gtagtttgaagaaattagagttttaattttatttttcttgtaattttaattttctgtttattttatatttggttgttgtaattattattagtgtttgtgcagATAGCTGTGGAGAAGTTTAGTGAAGCAACTGTTGGATACAGGCTCAATAGAGAAGTTGCTGAGAGATGGGTTCAGTTGTTTTATACTCACTATTTCATTG
| ||| || || | ||| || || | || | | ||| |||| |||||||||||||| |||||||||||||| | ||||| ||| || ||| || | |||||| | | ||| | | |||||| | |
-------------------------------------------gtagaatctttcaaagtttggtgaaccctctgtctcaaacatgag-agaactcgc-cagGTAGCCGTGGAGAAGTTTAGCGAAGCAACTGTTGGCTTCAGGCATGATAAGCGAGCTGCAGATAAATGGGTGCGAATTTTTCGCAGGCCTTATTTCCTGG
upper sequence: GLYMA05G24070.1 (Glycine max), 3'ss of exon 7
lower sequence: EFJ07835 (Selaginella moellendorffii), 3'ss of exon 5
gtagtttgaagaaattagagttttaattttatttttcttgtaattttaattttctgtttattttatatttggttgttgtaattattattagtgtttgtgcagATAGCTGTGGAGAAGTTTAGTGAAGCAACTGTTGGATACAGGCTCAATAGAGAAGTTGCTGAGAGATGGGTTCAGTTGTTTTATACTCACTATTTCATTG
| ||| || || | ||| || | | || | | ||| |||| |||||||||||||| |||||||||||||| | ||||| ||| || ||| || | |||||| | | ||| | | |||||| | |
-------------------------------------------gtagaatctttcaaagtttggtgaaccctctgtctcaaacacgag-agaactcgc-cagGTAGCCGTGGAGAAGTTTAGCGAAGCAACTGTTGGCTTCAGGCATGATAAGCGAGCTGCAGATAAATGGGTGCGAATTTTTCGCAGGCCTTATTTCCTGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aattttctgtttattttatatttggttgttgtaattattattagtgtttgtgcagATAGCTGTGGAGAAGTTTAGTGAAGCAACTGTTGGATACAGGCTCAATAGAGAAGTTGCTGAGAGATGGGTTCAGTTGTTTTATACTCACTATTTCATTG
ttttaat putative branch site (score: 3)
tgtttattttatattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtagtttgaagaaattagagttttaattttatttttcttgtaattttaattttctgtttattttatatttggttgttgtaattattattagtgtttgtgcagATAGCTGTGGAGAAGTTTAGTGAAGCAACTGTTGGATACAGGCTCAATAGAGAAGTTGCTGAGAGATGGGTTCAGTTGTTTTATACTCACTATTTCATTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG