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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaatattctgcaggtacacaaacttacatccactctatatgactttaacctgcaaaaggaatacagGGAAGCTTGAGAGGAAAGCTGTCCTCAAAGCTATTTGTGCTGGTTTTGAGGAAACTACAGAACCAAATGTTTGCCTGAGTGATG

Basic information

species Zea mays
transcript GRMZM2G303631_T01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G303631_T01 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os10g20630.1 (Oryza sativa), 3'ss of exon 4
------------gtaaatattctgcaggtacacaaacttacatccactctatatgactttaacctgcaaaaggaatacagGGAAGCTTGAGAGGAAAGCTGTCCTCAAAGCTATTTGTGCTGGTTTTGAGGAAACTACAGAACCAAATGTTTGCCTGAGTGATG
              |||| |  || | |     || ||  |||   ||||   | | ||||||||| ||||  ||  |||| |||||||| ||||||||||||||||||||||| |||||||| ||||| |||||||| || ||||||||||| || |||||||
gtaggtgttctacaaaatctgttgtaaggcttaaacctggcatttgctctggctaattttaacctggaaaactaa--cagGAAAGCTTGAAAGGAAAGCTGTCCTCAAAGCTATATGTGCTGGCTTTGAAGAAACTACCGAGCCAAATGTTTGTCTTAGTGATG

upper sequence: GRMZM2G303631_T01 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA10G40340.1 (Glycine max), 3'ss of exon 4
-----------gtaaatattctgcaggtacacaaacttacatccactctatatgactttaacctgcaaaaggaatacagGGAAGCTTGAGAGGAAAGCTGTCCTCAAAGCTATTTGTGCTGGTTTTGAGGAAACTACAGAACCAAATGTTTGCCTGAGTGATG
            |   | |     |||||   |     |  |||| |   || |  || |   |          |||||| ||  | ||||     |||||  | |||||||| |||||||||||||| |||||||| ||||||  ||||||  ||||   ||
gtttgtactgtatgcttctctgataggtattgatctggatttccaattcttaagcattcattttttgt------tacagGAAAATTGGAGAAAGGTGCTGTTATGAAAGCTATCTGTGCTGGTTTTGAAGAAACTACCGAACCAGCTGTTTGTTTGAGCAGTG

upper sequence: GRMZM2G303631_T01 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA20G27000.1 (Glycine max), 3'ss of exon 4
gtaaatattctgcaggtac---acaaacttacatccac-tctatatgactttaacctgcaaaaggaatac-agGGAAGCTTGAGAGGAAAGCTGTCCTCAAAGCTATTTGTGCTGGTTTTGAGGAAACTACAGAACCAAATGTTTGCCTGAGTGATG
||   || | ||    |     | | |  |  |||    | |  |   ||| | | | ||       | | ||| ||  | ||||     |||||  | |||||||| |||||||||||||| |||||||| ||||||  ||||||  ||||   ||
gtttgtactgtgtgcttctctgatagatattgatctggatttccaattcttaagcattcattttttgttccagGAAAATTGGAGAAAGGTGCTGTTATGAAAGCTATCTGTGCTGGTTTTGAAGAAACTACTGAACCAGCTGTTTGTTTGAGCAGTG

upper sequence: GRMZM2G303631_T01 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA11G00370.1 (Glycine max), 3'ss of exon 4
gtaaatattctgcaggtacacaaacttacatccactctatatgactttaacctgcaaaaggaatacagGGAAGCTTGAGAGGAAAGCTGTCCTCAAAGCTATTTGTGCTGGTTTTGAGGAAACTACAGAACCAAATGTTTGCCTGAGTGATG
||   || |||   | |      |     |  ||       |  |  |      || ||    | |||| ||  | ||||     ||||| || || ||||| ||| |||| |||||||||||||| ||||||| ||||||| ||||   ||
gtttgtactctat-gctcttgtgataggtagtcatctggagttccaattctaaacagaatctttccagGAAAATTGGAGAAAGGTGCTGTTCTAAAGGCTATATGTTCTGGGTTTGAGGAAACTACTGAACCAACTGTTTGCTTGAGCAGTG

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|5847202|gb|AW000281.1|AW000281
EST:     AGATGTTACTATATTGCCTACACTTGTTGTGAACAACCGGCAATATCGAG                         GGAAGCTTGAGAGGAAAGCTGTCCTCAAAGCTATTTGTGCTGGTTTTGAGG
genomic: AGATGTTACTATATTGCCTACACTTGTTGTGAACAACCGGCAATATCGAGgtaaatattc ... aggaatacagGGAAGCTTGAGAGGAAAGCTGTCCTCAAAGCTATTTGTGCTGGTTTTGAGG
EST: gi|5325106|gb|AI783297.1|AI783297
EST:     AGATGTTACTATATTGCCTACACTTGTTGTGAACAACCGGCAATATCGAG                         GGAAGCTTGAGAGGAAAGCTGTCCTCAAAGCTATTTGTGCTGGTTTTGAGG
genomic: AGATGTTACTATATTGCCTACACTTGTTGTGAACAACCGGCAATATCGAGgtaaatattc ... aggaatacagGGAAGCTTGAGAGGAAAGCTGTCCTCAAAGCTATTTGTGCTGGTTTTGAGG
EST: gi|211449604|gb|FL033165.1|FL033165
EST:     AGATGTTACTATATTGCCTACACTTGTTGTGAACAACCGGCAATATCGAG                         GGAAGCTTGAGAGGAAAGCTGTCCTCAAAGCTATTTGTGCTGGTTTTGAGG
genomic: AGATGTTACTATATTGCCTACACTTGTTGTGAACAACCGGCAATATCGAGgtaaatattc ... aggaatacagGGAAGCTTGAGAGGAAAGCTGTCCTCAAAGCTATTTGTGCTGGTTTTGAGG
EST: gi|5325027|gb|AI783218.1|AI783218
EST:     AGATGTTACTATATTGCCTACACTTGNTGNGAACAACCGGCAATATCGAG                         GGAAGCTTGAG
genomic: AGATGTTACTATATTGCCTACACTTGTTGTGAACAACCGGCAATATCGAGgtaaatattc ... aggaatacagGGAAGCTTGAG
EST: gi|211156293|gb|FL375842.1|FL375842
EST:     AGATGTTACTATATTGCCTACACTTGTTGTGAACAACCGGCAATATCGAG                         GGAAGCTTGAGAGGAAAGCTGTCCTCAAAGCTATTTGTGCTGGTTTTGAGG
genomic: AGATGTTACTATATTGCCTACACTTGTTGTGAACAACCGGCAATATCGAGgtaaatattc ... aggaatacagGGAAGCTTGAGAGGAAAGCTGTCCTCAAAGCTATTTGTGCTGGTTTTGAGG
EST: gi|32850609|gb|CD990290.1|CD990290
EST:     AGATGTTACTATATTGCCTACACTTGTTGTGAACAACCGGCAATATCGAG                         GGAAGCTTGAGAGGAAAGCTGTCCTCAAAGCTATTTGTGCTGGTTTTGAGG
genomic: AGATGTTACTATATTGCCTACACTTGTTGTGAACAACCGGCAATATCGAGgtaaatattc ... aggaatacagGGAAGCTTGAGAGGAAAGCTGTCCTCAAAGCTATTTGTGCTGGTTTTGAGG
EST: gi|91054221|gb|EB164639.1|EB164639
EST:     AGATGTTACTATATTGCCTACACTTGTTGTGAACAACCGGCAATATCGAG                         GGAAGCTTGAGAGGAAAGCTGTCCTCAAAGCTATTTGTGCTGGTTTTGAGG
genomic: AGATGTTACTATATTGCCTACACTTGTTGTGAACAACCGGCAATATCGAGgtaaatattc ... aggaatacagGGAAGCTTGAGAGGAAAGCTGTCCTCAAAGCTATTTGTGCTGGTTTTGAGG
EST: gi|211449603|gb|FL033164.1|FL033164
EST:     AGATGTTACTATATTGCCTACACTTGTTGTGAACAACCGGCAATATCGAG                         GGAAGCTTGAGAGGAAAGCTGTCCTCAAAGCTATTTGTGCTGGTTTTGAGG
genomic: AGATGTTACTATATTGCCTACACTTGTTGTGAACAACCGGCAATATCGAGgtaaatattc ... aggaatacagGGAAGCTTGAGAGGAAAGCTGTCCTCAAAGCTATTTGTGCTGGTTTTGAGG
EST: gi|211449602|gb|FL033163.1|FL033163
EST:     AGATGTTACTATATTGCCTACACTTGTTGTGAACAACCGGCAATATCGAG                         GGAAGCTTGAGAGGAAAGCTGTCCTCAAAGCTATTTGTGCTGGTTTTGAGG
genomic: AGATGTTACTATATTGCCTACACTTGTTGTGAACAACCGGCAATATCGAGgtaaatattc ... aggaatacagGGAAGCTTGAGAGGAAAGCTGTCCTCAAAGCTATTTGTGCTGGTTTTGAGG
EST: gi|211229612|gb|FL380029.1|FL380029
EST:     AGATGTTACTATATTGCCTACACTTGTTGTGAACAACCGGCAATATCGAG                         GGAAGCTTGAGAGGAAAGCTGTCCTCAAAGCTATTTGTGCTGGTTTTGAGG
genomic: AGATGTTACTATATTGCCTACACTTGTTGTGAACAACCGGCAATATCGAGgtaaatattc ... aggaatacagGGAAGCTTGAGAGGAAAGCTGTCCTCAAAGCTATTTGTGCTGGTTTTGAGG
EST: gi|211212797|gb|FL419176.1|FL419176
EST:     AGATGTTACTATATTGCCTACACTTGTTGT-AACAACCGGCAATATCGAG                         GGAAGCTTGAGAGGAAAGCTGTCCTCAAAGCTATTTGTGCTGGTTTTGAGG
genomic: AGATGTTACTATATTGCCTACACTTGTTGTGAACAACCGGCAATATCGAGgtaaatattc ... aggaatacagGGAAGCTTGAGAGGAAAGCTGTCCTCAAAGCTATTTGTGCTGGTTTTGAGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aggtacacaaacttacatccactctatatgactttaacctgcaaaaggaatacagGGAAGCTTGAGAGGAAAGCTGTCCTCAAAGCTATTTGTGCTGGTTTTGAGGAAACTACAGAACCAAATGTTTGCCTGAGTGATG
        aaactta  TA-rich tract