Sequence
atgc intronic sequence ATGC exonic sequencegtgagttgctttgtctgtgctccttcgggcttttgtagtcctcattcttagggttatcttagtgctaatttaaagcaatatacttgtttcagGCTTGCATATTTGCATGAAGCGATCGAGCCAAAGGTGGTACACCGAGATATCAAGTCAAGCAACATATTAATTGATGATGACTTCAATGCCAAGGTTTCT
Basic information
species | Glycine max |
transcript | GLYMA10G28490.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G28490.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv14s0060g00460.t01 (Vitis vinifera), 3'ss of exon 4
gtgagttgctttgtctgtgctccttcgggcttttgtagtcctcattcttagggttatcttagtgctaatttaaagcaatatacttgtttcagGCTTGCATATTTGCATGAAGCGATCGAGCCAAAGGTGGTACACCGAGATATCAAGTCAAGCAACATATTAATTGATGATGACTTCAATGCCAAGGTTTCT
| | || | | ||| || | | || |||||| | ||||||| ||| ||| ||||| || |||||||| || || |||||||| ||||| ||||| || || || ||||| ||||| || ||||||||||| ||||||||||||||||||
------------------------gtaagtcaat-tactttatgtccttgccagcatttctttcctcatttaatgtgatatactggttgcagTCTTGCCTACTTGCATGAGGCCATTGAGCCAAAAGTGGTGCACCGGGACATTAAATCAAGTAACATTTTGATTGATGATGATTTCAATGCCAAGGTTTCT
upper sequence: GLYMA10G28490.1 (Glycine max), 3'ss of exon 3
lower sequence: PP1S568_2V6.1 (Physcomitrella patens), 3'ss of exon 4
gtgagttgctttgtctgtgctccttcgggcttttgtagtcctcattcttagggttatctt----agtgctaattta------aagcaatatacttgtt--tcagGCTTGCATATTTGCATGAAGCGATCGAGCCAAAGGTGGTACACCGAGATATCAAGTCAAGCAACATATTAATTGATGATGACTTCAATGCCAAGGTTTCT
| | || | | | ||| ||| || | | | ||| | |||| | | |||| || | ||| | || ||| |||| | |||||||||||||| || | || || ||||| ||||| |||||||||||||| |||||||| | | |||| | | || || ||||| |||
--aggccagtctgacacttgtaattcacgctcgtgc--ttcatgtccttgagattatagttgggaatgctctttcattttctaagtgttttagcggttgatcagATTGGCATATTTGCATGAGGCTTTGGAACCGAAGGTTGTACATCGAGATATCAAGTCCAGCAACATTCTTGTGGATGCACAGTGGAACGCAAAGGTGTCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtcctcattcttagggttatcttagtgctaatttaaagcaatatacttgtttcagGCTTGCATATTTGCATGAAGCGATCGAGCCAAAGGTGGTACACCGAGATATCAAGTCAAGCAACATATTAATTGATGATGACTTCAATGCCAAGGTTTCT
tgctaat putative branch site (score: 2)
cttgtttc putative PPT
taatttaaagcaatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagttgctttgtctgtgctccttcgggcttttgtagtcctcattcttagggttatcttagtgctaatttaaagcaatatacttgtttcagGCTTGCATATTTGCATGAAGCGATCGAGCCAAAGGTGGTACACCGAGATATCAAGTCAAGCAACATATTAATTGATGATGACTTCAATGCCAAGGTTTCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA