Sequence
atgc intronic sequence ATGC exonic sequence...gttgttagcattttcattgtaatatattttggatgttattgccttttgttttctcttcttttaagttttaaccatttccaagttgtaaattaaatctcagATGGTCTCAAATTGCCGCACGTCTCCCTGGTCGCACAGACAATGAGATCAAGAATTTCTGGAACTCCACACTGAAGAAAAGGTTGAAAATGAACAACAAT
Basic information
species | Glycine max |
transcript | GLYMA19G05080.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G05080.1 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os12g33070.1 (Oryza sativa), 3'ss of exon 1
-gttgttagcattttcattgtaatata-ttttggatgttattgccttttgttttctcttcttttaagttttaaccatttccaagttgtaaattaaatctcagATGGTCTCAAATTGCCGCACGTCTCCCTGGTCGCACAGACAATGAGATCAAGAATTTCTGGAACTCCACACTGAAGAAAAGGTTGAAAATGAACAACAAT
| | || | ||| | ||| || | || | || | | || || | || | | | | | | | ||||| | ||| |||||||| || || || || || || || ||||| ||||| ||||||||||| |||||||||||||| | ||||| | | || || | |
catagctatagctaagcttggataataattcttgacagaaacatctcgtttgctcactgatgaaaaatctaccgtactacgacgcatggaatta--ttgcagGTGGTCTCAGATCGCTGCCCGGCTACCGGGGCGCACCGACAACGAGATCAAGAACTTCTGGAACTCCACCATCAAGAAGCGCCTCAAGATCTCCTCCTCC
upper sequence: GLYMA19G05080.1 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G052606_T01 (Zea mays), 3'ss of exon 1
gttgttagcattttcattgtaatatattttggatgttattgccttttgttttctcttcttttaagttttaaccatttccaagttgtaa-attaaatctcagATGGTCTCAAATTGCCGCACGTCTCCCTGGTCGCACAGACAATGAGATCAAGAATTTCTGGAACTCCACACTGAAGAAAAGGTTGAAAATGAAC--AACAAT
| | | ||| | | | | | || | | | | || ||| | || || | | ||| | |||| || ||| |||||||| ||||| || || | || || ||||| ||||| ||||||||||| |||||||||||||| | ||||| || | || | | | ||
-gtacgtacgtacgcatgacactttctctctgacagaaagatcctggatcgatcgtttgcttactgtgaaatcaaccctcacttgcgacattatattccagGTGGTCTCAGATTGCTGCCCGGTTGCCGGGGCGCACCGACAACGAGATCAAGAACTTCTGGAACTCCACCATCAAGAAGCGGCTCAAGAACAGCTCGGCA-- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgttttctcttcttttaagttttaaccatttccaagttgtaaattaaatctcagATGGTCTCAAATTGCCGCACGTCTCCCTGGTCGCACAGACAATGAGATCAAGAATTTCTGGAACTCCACACTGAAGAAAAGGTTGAAAATGAACAACAAT
ttttaac putative branch site (score: 2)
ttcttttaagttttaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttgttagcattttcattgtaatatattttggatgttattgccttttgttttctcttcttttaagttttaaccatttccaagttgtaaattaaatctcagATGGTCTCAAATTGCCGCACGTCTCCCTGGTCGCACAGACAATGAGATCAAGAATTTCTGGAACTCCACACTGAAGAAAAGGTTGAAAATGAACAACAAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - -tggatgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccatttc