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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattgaattttgatttcctgtgtttatgagtgatctgagcaaactagcatctgtaagtagtaaactaaattaaattattgtttatatcttccttaatgtaacacaatttttatctcgtattctagGTCCTGCATTAGTTACAACAAAAGATGCTGGTGATGCAATTACATTGTTTCAATCACTTGTTGGTTCAACATTTGATAGCAGCCAGCTTGTCTTTACTGC

Basic information

species Glycine max
transcript GLYMA10G05490.1
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G05490.1 (Glycine max), 3'ss of exon 11
lower sequence: LOC_Os03g17540.1 (Oryza sativa), 3'ss of exon 11
gtattgaattttgatttcctgtgtttatgagtgatctgagcaaactagcatctgtaagtagtaaactaaattaaattattgtttatatcttccttaatgtaacacaa-----tttttatctcgtattctagGTCCTGCATTAGTTACAACAAAAGATGCTGGTGATGCAATTACATTGTTTCAATCACTTGTTGGTTCAACATTTGATAGCAGCCAGCTTGTCTTTACTGC
                    || |   | | |   ||||  || |||   | |   | || |        |  ||| |   || || | |   |  |    ||||       ||| ||| | |  || |||| |||||  | || || ||||| |||||||| |||||||||||||| || ||||| |||| ||| || || ||||| ||||| || ||||| || || ||
--------------------gtataacttaatc-cctgaaaaagctattgtttcctattatttgttcttttctaataagcattgatgtgtaagtgtaatctacactgttgtctttgtatgttgatttgtagGGCCTGCCCTGGTGACCACAAAGGATGCTGGAGATGCAATTACATTATTGCAATCTCTTGCTGGCTCTACTTTTGACAGCAGTCAACTTGTGTTGACAGC

upper sequence: GLYMA10G05490.1 (Glycine max), 3'ss of exon 11
lower sequence: GRMZM2G154883_T02 (Zea mays), 3'ss of exon 10
gtattgaattttgatttcctgt--gtttatgagtgatctgagcaaactagcatctgtaagtagtaaactaaattaaattattgtttatatcttccttaatgtaacacaatttttatctcgtattctagGTCCTGCATTAGTTACAACAAAAGATGCTGGTGATGCAATTACATTGTTTCAATCACTTGTTGGTTCAACATTTGATAGCAGCCAGCTTGTCTTTACTGC
||||||  | ||  ||    ||  |||||| |       ||  |   ||   | | |   |       |   ||  |  | | || || |    || ||          ||  ||  |    ||  ||| |||||| |||| || ||||||||||| || |||||||||||| |  | || || |||| ||| || |||||||| |||||||||||||| || || ||
gtattggttattccttcgtagtctgtttattaacatctggaaaatgttaaagtttttttatttgttctttttttttacgaattttgatgtgcaact-aacactgttgtcttcatacattaatttgcagGGCCTGCACTAGTGACCACAAAAGATGCCGGAGATGCAATTACACTACTGCAGTCTCTTGCTGGATCTACATTTGACAGCAGCCAGCTTGTATTGACAGC

upper sequence: GLYMA10G05490.1 (Glycine max), 3'ss of exon 11
lower sequence: GRMZM2G095868_T02 (Zea mays), 3'ss of exon 10
gtattgaattttgatttcctg--tgtttatgagtgatctgagcaaactagcatctgtaagtagtaaactaaattaaattattgtttatatcttccttaatgtaacacaatttttatctcgtattctagGTCCTGCATTAGTTACAACAAAAGATGCTGGTGATGCAATTACATTGTTTCAATCACTTGTTGGTTCAACATTTGATAGCAGCCAGCTTGTCTTTACTGC
|||||   | |   ||    |  ||||||| |   |||||   ||  |    |   |   |  |    | |  ||  ||  |||  | |||  | ||  |||       ||  ||  |    ||  ||| |||||| | || || ||||||||||| || |||||||||||| |  | ||||| |||| ||| || || ||||| |||||||||||||| || || ||
gtattagttatcccttcttagcctgtttattaac-atctggaaaatgtttttttatttgttcttttttttatctattttgatgtgca-atcaacattgttgtc------ttcatacattaatttgcagGGCCTGCACTTGTGACCACAAAAGATGCCGGAGATGCAATTACACTACTGCAATCTCTTGCTGGGTCTACTTTTGACAGCAGCCAGCTTGTATTGACAGC

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|193493307|gb|FK460057.1|FK460057
EST:     GAACCGTGTTATGCTATTTCGAACAGCACTGGCTCTAATGGAATTATATG                         GTCCTGCATTAGTTA
genomic: GAACCGTGTTATGCTATTTCGAACAGCACTGGCTCTAATGGAATTATATGgtattgaatt ... cgtattctagGTCCTGCATTAGTTA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taaattattgtttatatcttccttaatgtaacacaatttttatctcgtattctagGTCCTGCATTAGTTACAACAAAAGATGCTGGTGATGCAATTACATTGTTTCAATCACTTGTTGGTTCAACATTTGATAGCAGCCAGCTTGTCTTTACTGC
                         atgtaac  putative branch site (score: 3)
                                    tttttatctc  putative PPT
                      ttaatgtaacacaatt  TA-rich tract