Sequence
atgc intronic sequence ATGC exonic sequence...gttttcaatgggttttatggttacaaatatgcttttagaattatatatggcaatttttatggcaaagttttagcattcatgatgtttgtcttatgtgcagATTCAAGCTGCATTTCGCACGGATGAAATTCGAAGGACTCCTCCTACCCCACAAGATGAGATGAGGGCAGGAATGAGCTACTTTCATGAGACAATTTGGA
Basic information
species | Glycine max |
transcript | GLYMA13G36670.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G36670.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os08g27840.1 (Oryza sativa), 3'ss of exon 3
------------------------------------------------------------------gttttcaatgggttttatgg-ttacaaatatgcttttagaattat-----atatggcaatttttatg-----gcaaagttt--ta--gcattcatgatgt-----------ttgtcttatgtg-cagATTCAAGCTGCATTTCGCACGGATGAAATTCGAAGGACTCCTCCTACCCCACAAGATGAGATGAGGGCAGGAATGAGCTACTTTCATGAGACAATTTGGA
||||| || || || ||| |||| | |||| || || || | ||| || |||| || | || ||| || ||||| || | || | |||||| | ||||||||||| || ||| | || ||||| || ||||| || | || || || |||||||| |||||||| || ||||| ||||||||||||||||| ||||
gtaagataatcaagttaatcactgactcatttatagtcttgattttttttttcaaattgtatgtgccttttcgattatttatagaaattataaat-tactttcagcatgatgctcaacatgccagattttgtgctccaactaaatttattaatgcattaataaggtgaatcagaacatgttcttatttttcagATTCAAGCAGCCTTTAGAACTGATGAGATCCGAAGAACCCAGCCAACTCCTCAAGATGAAATGAGGGCTGGTATGAGTTACTTTCATGAGACAATCTGGA
upper sequence: GLYMA13G36670.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os01g55350.1 (Oryza sativa), 3'ss of exon 5
------------------------------------------gttttcaatgggttttatggttacaaatatgcttttagaattatatatggcaatttttatggcaaagttttagcattcatgatgtttgt-cttatgtgcagATTCAAGCTGCATTTCGCACGGATGAAATTCGAAGGACTCCTCCTACCCCACAAGATGAGATGAGGGCAGGAATGAGCTACTTTCATGAGACAATTTGGA
| | || | |||| |||| | || | ||| || || | | | | || || |||| | || ||| | ||||||| ||||| ||||| || ||| | || ||||||||||| | | |||||||| ||||| ||||| ||| | || |||||||| || |||||||||||||| ||||
gtgatttcctttttgtaggagcttggattatgagtggcacaagaccactatagtgattatttcaacaatca-gcaagatttgtcatacatcaaaaatatatttatatgattcta--attccttatattttttcttatgttcagATCCAAGCCGCCTTTAGAACAGATGAAATTCGGCGAGCACCTCCTACACCACAGGATGAAATGCGTGCTGGAATGAGTTATTTTCATGAGACAATATGGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatggcaatttttatggcaaagttttagcattcatgatgtttgtcttatgtgcagATTCAAGCTGCATTTCGCACGGATGAAATTCGAAGGACTCCTCCTACCCCACAAGATGAGATGAGGGCAGGAATGAGCTACTTTCATGAGACAATTTGGA
tttgtctt CT-rich tract
aatttttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttttcaatgggttttatggttacaaatatgcttttagaattatatatggcaatttttatggcaaagttttagcattcatgatgtttgtcttatgtgcagATTCAAGCTGCATTTCGCACGGATGAAATTCGAAGGACTCCTCCTACCCCACAAGATGAGATGAGGGCAGGAATGAGCTACTTTCATGAGACAATTTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - -gggtttt
- - - - - - - - - - - - - -tatgctt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gcattca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgtttgt