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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGCTCTGAATCTGTCAGGAACTGTGCTCGGATATTATCCTGTCAGGGTTCTGCCATCGAAAACTGCCATTGCACCAGTCAATCCAACATTCCTACCCAGGgtatgcaaccttcaggaatcaacatacttgtgttaagttcatagcccaaggttcattcttgtatctggtatggtatttaaaaaagtttgccatttttctgtgatctgcag

Basic information

species Zea mays
transcript GRMZM2G173428_T02
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G173428_T02 (Zea mays), 5'ss of exon 4
lower sequence: LOC_Os08g02330.1 (Oryza sativa), 5'ss of exon 5
TGCTCTGAATCTGTCAGGAACTGTGCTCGGATATTATCCTGTCAGGGTTCTGCCATCGAAAACTGCCATTGCACCAGTCAATCCAACATTCCTACCCAGGgtatgc--aaccttcaggaatcaacatacttgtgttaagttcatagccca--------------aggttcattcttgtatctg-gtatggtatttaaaaaagtttgccatt-tttctgtgatctgcag
|||||| ||| |||| ||||| ||||| |||||||||||||||||||| |||||||| |||||||| |||||||| || || |||||||| || ||||||||| ||  || || ||  | |||   || |||  | || |||||     |              |  || || |   ||  ||   |    || |  ||||| | |||    ||  |||   ||||||
TGCTCTAAATTTGTCGGGAACCGTGCTTGGATATTATCCTGTCAGGGTGCTGCCATCAAAAACTGCGATTGCACCTGTTAACCCAACATTTCTGCCCAGGgtaagctgaatctgcacaattca-tgtatttgcataaatttcattattaattcttatttcaatgaaatttatgcaaatacgtgtacacctgatgtctaaaagctggcccccattcttgttgcctgcag

upper sequence: GRMZM2G173428_T02 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA04G40750.1 (Glycine max), 5'ss of exon 6
TGCTCTGAATCTGTCAGGAACTGTGCTCGGATATTATCCTGTCAGGGTTCTGCCATCGAAAACTGCCATTGCACCAGTCAATCCAACATTCCTACCCAGGgtatgcaaccttcaggaatcaacatacttgtgttaagttcatagcccaaggttcattcttgtatctggtatggtatttaaaaaagtttgccatttttctgtgatctgcag
|||| |||  ||||| || ||  |||| |||||||| ||  | || || || || || ||||||||||||||||| ||||||||||||||  | |||||||||       ||| |   |||  || | | |   | ||   |||   | |  | |   | ||       |   |  ||   |   |||   ||  | ||||  |   |||
TGCTTTGAGCCTGTCTGGTACCATGCTTGGATATTACCCATTGAGAGTGCTACCTTCAAAAACTGCCATTGCACCGGTCAATCCAACATTTTTGCCCAGGgta-atgtttttctgt--tcatgatgcctattacatgtat-tagaagatgaatgaccatagtgaacta-acaatgcttgttacc-tttctaatggtgctgtatttctcag

upper sequence: GRMZM2G173428_T02 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA06G14050.2 (Glycine max), 5'ss of exon 6
TGCTCTGAATCTGTCAGGAACTGTGCTCGGATATTATCCTGTCAGGGTTCTGCCATCGAAAACTGCCATTGCACCAGTCAATCCAACATTCCTACCCAGGgtatgcaaccttcaggaatcaacatacttgtgttaagttcatagcccaaggttcattcttgtatctggtatggtatttaaaaaagtttgccatttttctgtgatctgcag
|||| |||  ||||| || ||  |||| |||||||| ||  | || || || || || ||||||||||||||||||||||||||||||||  | ||||||||| |     ||  |   |||  || | | |   | ||   |||   | |  | |   | ||       |   |  ||   |   |||   ||  | ||||  |   |||
TGCTTTGAGCCTGTCTGGTACCATGCTTGGATATTACCCACTGAGAGTGCTACCTTCAAAAACTGCCATTGCACCAGTCAATCCAACATTTTTGCCCAGGgta-gtgttttttggt--tcatgatgcctattgcatgtat-tagaagatgaatgaccatagtgaacta-acaatgcttgctacc-tttctaatggtgctgtatttctcag

upper sequence: GRMZM2G173428_T02 (Zea mays), 5'ss of exon 4
lower sequence: Vv02s0025g02740.t01 (Vitis vinifera), 5'ss of exon 6
TGCTCTGAATCTGTCAGGAACTGTGCTCGGATATTATCCTGTCAGGGTTCTGCCATCGAAAACTGCCATTGCACCAGTCAATCCAACATTCCTACCCAGGgtatgcaaccttcaggaatcaacatacttgtgttaagtt--catagcccaaggttcattcttgtatctggtatggtatttaaaaaagtttgccatttttctgtgatctgcag
|||| ||| |||| |||| ||  |||| ||||| || ||||| ||||| |||||||| ||||| |||||||||||||| || || |||||  | || |||||  | ||| ||       ||  ||  | || || | ||  || |     |   |     || |        |  | |   || ||  |     |  | || ||  || |||
TGCTTTGAGTCTGGCAGGGACAATGCTTGGATACTACCCTGTGAGGGTGCTGCCATCTAAAACAGCCATTGCACCAGTTAACCCTACATTTTTGCCTAGGgtgagaaacttt-----gccattatgatcgttttcattttccaaaatttgaaaattggagttttggtgaagtttctctcctaataacatgatgttggtactttggacttcag

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|9743159|gb|BE519307.1|BE519307
EST:     TGCCATCGAAAACTGCCATTGCACCAGTCAATCCAACATTCCTACCCAGG                         TCTGACGATGAACGGGAAATGTGTGCGAGGACTATTTACTGCACAAACATT
genomic: TGCCATCGAAAACTGCCATTGCACCAGTCAATCCAACATTCCTACCCAGGgtatgcaacc ... tgatctgcagTCTGATGATGAACGGGAAATGTGTGCGAGGACTATTTACTGCACAAACATT