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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cttctggtaatagtttatgtacctctagaaattaaatcaatacagcactgctggttgaaatatttattgacgttatttatcttggcattttcattttcagGCTGAGTACAATGCCATCTCATATTCTGACCAAATGAGATTAAGAACAGCAGTTGAACTTTTAAAAGCCACGAAGGACATTGAATCACAGTTGGAAAAG

Basic information

species Zea mays
transcript GRMZM2G085438_T01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G085438_T04 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os01g49380.1 (Oryza sativa), 3'ss of exon 6
cttctggtaatagtttatgtacctctagaaattaa-atcaatacagcactgctggttgaaatatttattgacgttatttatcttggc-attttca-ttttcagGCTGAGTACAATGCCATCTCATATTCTGACCAAATGAGATTAAGAACAGCAGTTGAACTTTTAAAAGCCACGAAGGACATTGAATCACAGTTGGAAAAG
 |  | | || | |      ||||    |||  |  |||| |||   |  ||| ||||||| || ||   | | |||  ||| |  | |||||||  || |||||||||||||||||||| |||||| |  | |||||||| || || ||||||||||||||||| || || || |||||||| ||||| |||||||| |||
-taatagcaagaatcataacaccttggaaaaaaagcatcagtactagaaagcttgttgaaacatcta--aatgctataaatcctctctattttcaacttccagGCTGAGTACAATGCCATTTCATATACCCAACAAATGAGGTTGAGGACAGCAGTTGAACTTTTGAAGGCTACAAAGGACATAGAATCCCAGTTGGAGAAG
















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|37375743|gb|CF624330.1|CF624330
EST:     AGAAAGATATAGGAGATTTGGC--------ATCCAAGGAAAAGGAAAGTA                         GCTGAGTACAATGCCATCTCATATTCTGACCAAATGAGATTAAGAACAGCA
genomic: AGAAAGATATAGGAGATTTGGCATTTAGAGATCCAAGGAAAAGGAAAGTAgtaagtttct ... tcattttcagGCTGAGTACAATGCCATCTCATATTCTGACCAAATGAGATTAAGAACAGCA
EST: gi|110518313|gb|EE022900.1|EE022900
EST:     CAAGGAAAAGGAAAGTA                         GCTGAGTACAATGCCATCTCATATTCTGACCAAATGAGATTAAGAACAGCA
genomic: CAAGGAAAAGGAAAGTAgtaagtttct ... tcattttcagGCTGAGTACAATGCCATCTCATATTCTGACCAAATGAGATTAAGAACAGCA
EST: gi|71759858|gb|DR957795.1|DR957795
EST:     AGAAAGATATAGGAGATTTGGCATTTAGAGATCCAAGGAAAAGGAAAGTA                         GCTGAGTACAATGCCATCTCATATTCTGACCAAATGAGATTAAGAACAGCA
genomic: AGAAAGATATAGGAGATTTGGCATTTAGAGATCCAAGGAAAAGGAAAGTAgtaagtttct ... tcattttcagGCTGAGTACAATGCCATCTCATATTCTGACCAAATGAGATTAAGAACAGCA
EST: gi|78082085|gb|DV510497.1|DV510497
EST:     GAAAGATATAGGAGATTTGGCATTTTGAGATCCAAGGAAAAGGAAAGTA                         GCTGAGTACAATGCCATCTCATATTCTGACCAAATGAGATTAAGAACAGCA
genomic: GAAAGATATAGGAGATTTGGCATTTAGAGATCCAAGGAAAAGGAAAGTAgtaagtttct ... tcattttcagGCTGAGTACAATGCCATCTCATATTCTGACCAAATGAGATTAAGAACAGCA
EST: gi|88752776|gb|DY536917.1|DY536917
EST:     AGAAAGATATAGGAGATTTGGCATTTAGAGATCCAAGGAAAAGGAAAGTA                         GCTGAGTACAATGCCATCTCATATTTTGACCAAATGAGATTAAGAACAGCA
genomic: AGAAAGATATAGGAGATTTGGCATTTAGAGATCCAAGGAAAAGGAAAGTAgtaagtttct ... tcattttcagGCTGAGTACAATGCCATCTCATATTCTGACCAAATGAGATTAAGAACAGCA
EST: gi|78123598|gb|DV541982.1|DV541982
EST:     AGAAAGATATAGGAGATTTGGCATTTAGAGATCCAAGGAAAAGGAAAGTA                         GCTGAGTACAATGCCATCTCATATTCTGACCAAATGAGATTAAGAACAGCA
genomic: AGAAAGATATAGGAGATTTGGCATTTAGAGATCCAAGGAAAAGGAAAGTAgtaagtttct ... tcattttcagGCTGAGTACAATGCCATCTCATATTCTGACCAAATGAGATTAAGAACAGCA
EST: gi|78076592|gb|DV505026.1|DV505026
EST:     AGAAAGATATAGGAGATTTGGCATTTAGAGATCCAAGGAAAAGGAAAGTA                         GCTGAGTACAATGCCATCTCATATTCTGACCAAATGAGATTAAGAACAGCA
genomic: AGAAAGATATAGGAGATTTGGCATTTAGAGATCCAAGGAAAAGGAAAGTAgtaagtttct ... tcattttcagGCTGAGTACAATGCCATCTCATATTCTGACCAAATGAGATTAAGAACAGCA
EST: gi|40333901|gb|CK367971.1|CK367971
EST:     AGAAAGATATAGGAGATTTGGC--------ATCCAAGGAAAAGGAAAGTA                         GCTGAGTACAATGCCATCTCATATTCTGACCAAATGAGATTAAGAACAGCA
genomic: AGAAAGATATAGGAGATTTGGCATTTAGAGATCCAAGGAAAAGGAAAGTAgtaagtttct ... tcattttcagGCTGAGTACAATGCCATCTCATATTCTGACCAAATGAGATTAAGAACAGCA
EST: gi|86468691|gb|DY235061.1|DY235061
EST:     AGAAAGATATAGGAGATTTGGCATTTAGAGATCCAAGGAAAAGGAAAGTA                         GCTGAGTACAATGCCATCTCATATTCTGACCAAATGAGATTAAGAACAGCA
genomic: AGAAAGATATAGGAGATTTGGCATTTAGAGATCCAAGGAAAAGGAAAGTAgtaagtttct ... tcattttcagGCTGAGTACAATGCCATCTCATATTCTGACCAAATGAGATTAAGAACAGCA
EST: gi|71759897|gb|DR957834.1|DR957834
EST:     AAGATATAGGAGATTTGGCATTTAGAGATCCAAGGAAAAGGAAAGTA                         GCTGAGTACAATGCCATCTCATATTCTGACCAAATGAGATTAAGAACAGCA
genomic: AAGATATAGGAGATTTGGCATTTAGAGATCCAAGGAAAAGGAAAGTAgtaagtttct ... tcattttcagGCTGAGTACAATGCCATCTCATATTCTGACCAAATGAGATTAAGAACAGCA
EST: gi|31354329|gb|CD438686.1|CD438686
EST:     AGAAAGATATAGGAGATTTGGCATTTAGAGATCCAAGGAAAAGGAAAGTA                         GCTGAGTACAATGCCATCTCATATTCTGACCAAATGAGATTAAGAACAGCA
genomic: AGAAAGATATAGGAGATTTGGCATTTAGAGATCCAAGGAAAAGGAAAGTAgtaagtttct ... tcattttcagGCTGAGTACAATGCCATCTCATATTCTGACCAAATGAGATTAAGAACAGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cactgctggttgaaatatttattgacgttatttatcttggcattttcattttcagGCTGAGTACAATGCCATCTCATATTCTGACCAAATGAGATTAAGAACAGCAGTTGAACTTTTAAAAGCCACGAAGGACATTGAATCACAGTTGGAAAAG
                   tattgac  putative branch site (score: 2)
                                          ttttcattttc  putative PPT
            aaatatttattgacgt  TA-rich tract