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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tccatgctatagtaaattacgctgagtagtattatgtcatgtgtcccatgctctctggatgttgtttactggaacctttttttgtggttattttctgcagTGACCTTTAGTCGTATAGATCCTGGAGGGAAACTTGTTATGGGCTTTCGGAAGGCCACAAATACTGTCAGTCTGCCA

Basic information

species Zea mays
transcript GRMZM2G158162_T01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G158162_T03 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os07g48200.1 (Oryza sativa), 3'ss of exon 6
tccatgctatagtaaattacgctgagtagtattatgtcatgtgtcccatgctctct---ggatgttgtttactggaacctttttttgtggttattttctgcagTGACCTTTAGTCGTATAGATCCTGGAGGGAAACTTGTTATGGGCTTTCGGAAGGCCACAAATACTGTCAGTCTGCCA
    |  |||| | ||  | ||| ||||| ||| |  ||| |      || ||||    ||| | | || |     |    |  || | ||| | || | ||||||| |||||||| ||||| |||||||||||||||||||||||||| |||||||||||||| ||||||||| |||||
--ggtaatatatttaaacatgctaagtagaattgttccatattaaatgtgatctcactgggaaggttttcatacttaatggtgattcttgttttctttt-cagTGACTTTTAGTCGGATAGAACCTGGAGGGAAACTTGTTATGGGCTTCCGGAAGGCCACAAACACTGTCAGTTTGCCA

upper sequence: GRMZM2G158162_T03 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA18G05840.1 (Glycine max), 3'ss of exon 8
tccatgctatagtaaattacgctgagtagtat-tatgtcatgtgtcccatgctctctggatgttgtttactggaacctttttttgtggttattttctgcagTGACCTTTAGTCGTATAGATCCTGGAGGGAAACTTGTTATGGGCTTTCGGAAGGCCACAAATACTGTCAGTCTGCCA
    ||  ||| ||  |   |   |     |  |||    || | |  ||      || |  |     | |   |   |||| | || |  |||| || ||| || |||||||| |||||||| ||||| |||||||||||||| ||  | |||||  | ||| ||     |   |  
-tattggaatactatgtagggtcaaacttcacatattctttgaggctaatatgtcttgcaaatctgaaattactattcttttatatgatgcttttatgtagTAACATTTAGTCGGATAGATCCCGGAGGCAAACTTGTTATGGGTTTCAGAAAGGCATCTAATTCTACAGATACACAG

upper sequence: GRMZM2G158162_T03 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA11G31270.1 (Glycine max), 3'ss of exon 2
tccatgctatagtaaattacgctgagtagtat-tatgtcatgtgtcccatgctctctggatgttgtttactggaacctttttttgtggttattttctgcagTGACCTTTAGTCGTATAGATCCTGGAGGGAAACTTGTTATGGGCTTTCGGAAGGCCACAAATACTGTCAGTCTGCCA
   ||    || ||  |   |   |     |  |||    || | |  ||      || |  |      ||   |   |||| | || |  |||| |||||| || |||||||| |||||||||||||| ||||| |||||||| ||  | || ||  ||||| ||     |   |  
-ttattggttactatgtagggtcaaacttcagatattctttgaggctaatatgtcttgcaaatctgaagctactattcttttatatgatgcttttatgcagTAACATTTAGTCGGATAGATCCTGGAGGCAAACTAGTTATGGGTTTCAGAAAAGCATCAAATTCTACAGATACACAG

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|5268958|gb|AI770922.1|AI770922
EST:     GGGTGTTACACCATGCATACAATCATTGCAATTACAAGCTGGCGATACAG                         TGACCTTTAGTCGTATAGATCCTGGAGGGAAACTTGTTATGGGCTTTCGGA
genomic: GGGTGTTACACCATGCATACAATCATTGCAATTACAAGCTGGCGATACAGgtaattagca ... ttttctgcagTGACCTTTAGTCGTATAGATCCTGGAGGGAAACTTGTTATGGGCTTTCGGA
EST: gi|67034443|gb|CO462993.1|CO462993
EST:     GGGTGTTACACCATGCATACAATCATTGCAATTACAAGCTGGCGATACAG                         TGACCTTTAGTCGTATAGATCCTGGAGGGAAACTTGTTATGGGCTTTCGGA
genomic: GGGTGTTACACCATGCATACAATCATTGCAATTACAAGCTGGCGATACAGgtaattagca ... ttttctgcagTGACCTTTAGTCGTATAGATCCTGGAGGGAAACTTGTTATGGGCTTTCGGA
EST: gi|67040653|gb|CO466908.1|CO466908
EST:     GTGTTACACCATGCATANCA-TCATTGCAAATTACA-GCTGGCGATACAG                         TGACCTTTAGTCGTATAGATCCTGGNAGG-AAACTTGTTATGGGCTTTCG-
genomic: GTGTTACACCATGCATA-CAATCATTGCAA-TTACAAGCTGGCGATACAGgtaattagca ... ttttctgcagTGACCTTTAGTCGTATAGATCCTGG-AGGGAAACTTGTTATGGGCTTTCGG
EST: gi|13150757|gb|BG321079.1|BG321079
EST:     GGGTGTTACACCATGCATACAATCATTGCAATTACAAGCTGGCGATACAG                         TGACCTTTAGTCGTATAGATCCTGGAGGGAAACTTGTTATGGGCTTTCGGA
genomic: GGGTGTTACACCATGCATACAATCATTGCAATTACAAGCTGGCGATACAGgtaattagca ... ttttctgcagTGACCTTTAGTCGTATAGATCCTGGAGGGAAACTTGTTATGGGCTTTCGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccatgctctctggatgttgtttactggaacctttttttgtggttattttctgcagTGACCTTTAGTCGTATAGATCCTGGAGGGAAACTTGTTATGGGCTTTCGGAAGGCCACAAATACTGTCAGTCTGCCA
                                          ttattttct  CT-rich tract
                               tttttttgt  TA-rich tract