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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atcgggctgtccctttttttctctttgctgcaagctctatgggatctgcgaatggttgttgcctcgatttgttaaagggttgaacctttgtttgatgcagGAGACCTGCCCCTCGGTGAAGAACATCCTCTTGCTGGACTCGGAGGGAAAGCGCGTCGCCGTAAAGTACTACAGCGATGACTGGCCTACTCTATCCGCGA

Basic information

species Zea mays
transcript GRMZM2G431350_T01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G431350_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os05g38610.1 (Oryza sativa), 3'ss of exon 1
atcgggctgtccctttttttctctttgctgcaagctctatgggatctgcgaatggttgttgcctcgatt-tgttaaagggttgaacctttgtttgatgcagGAGACCTGCCCCTCGGTGAAGAACATCCTCTTGCTGGACTCGGAGGGAAAGCGCGTCGCCGTAAAGTACTACAGCGATGACTGGCCTACTCTATCCGCGA
   |||||  || ||| ||  | ||  | ||| |  | |   |   |     | ||||||   | | |  ||     |  ||||   |||| | | | |||||  ||||||| |||||||||||||||||  ||||||| || ||||| |||||||||||||| ||||||||||  ||||| ||||||||||| || ||||
gctgggctccccgtttcttggttttcacggcaggtgcaaatcgggatctcgtttgttgttagttagttgatggcgttgctttgatggtttgctcg-tacagGAATCCTGCCCTTCGGTGAAGAACATCCTTCTGCTGGATTCCGAGGGGAAGCGCGTCGCCGTCAAGTACTACACGGATGATTGGCCTACTCTCTCGGCGA
















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|30591255|gb|CD052281.1|CD052281
EST:     TCCCGACCACCGTCCTCGGCTCCCCGCCGTGAATCCATCATCCCGTAATG                         GAGACCTGCCCCTCGGTGAAGAACATCCTCTTGCTGGACTCGGAGGGAAAG
genomic: TCCCGACCACCGTCCTCGGCTCCCCGCCGTGAATCCATCATCCCGTAATGgtaggtagtc ... tttgatgcagGAGACCTGCCCCTCGGTGAAGAACATCCTCTTGCTGGACTCGGAGGGAAAG
EST: gi|211420227|gb|FL011433.1|FL011433
EST:     TCCCGACCACCGTCCTCGGCTCCCCGCCGTGAATCCATCATCCCGTAATG                         GAGACCTGCCCCTCGGTGAAGAACATCCTCTTGCTGGACTCGGAGGGAAAG
genomic: TCCCGACCACCGTCCTCGGCTCCCCGCCGTGAATCCATCATCCCGTAATGgtaggtagtc ... tttgatgcagGAGACCTGCCCCTCGGTGAAGAACATCCTCTTGCTGGACTCGGAGGGAAAG
EST: gi|32863613|gb|CF003295.1|CF003295
EST:     TCCCGACCACCGTCCTCGGCTCCCCGCCGTGAATCCATCATCCCGTAATG                         GAGACCTGCCCCTCGGTGAAGAACATCCTCTTGCTGGACTCGGAGGGAAAG
genomic: TCCCGACCACCGTCCTCGGCTCCCCGCCGTGAATCCATCATCCCGTAATGgtaggtagtc ... tttgatgcagGAGACCTGCCCCTCGGTGAAGAACATCCTCTTGCTGGACTCGGAGGGAAAG
EST: gi|22819983|gb|BU500073.1|BU500073
EST:     TCCCGACCACCGTCCTCGGCTCCCCGCCGTGAATCCATCATCCCGTAATG                         GAGACCTGCCCCTCGGTGAAGAACATCCTCTTGCTGGACTCGGAGGGAAAG
genomic: TCCCGACCACCGTCCTCGGCTCCCCGCCGTGAATCCATCATCCCGTAATGgtaggtagtc ... tttgatgcagGAGACCTGCCCCTCGGTGAAGAACATCCTCTTGCTGGACTCGGAGGGAAAG
EST: gi|211420234|gb|FL011440.1|FL011440
EST:     TCCCGACCACCGTCCTCGGCTCCCCGCCGTGAATCCATCATCCCGTAATG                         GAGACCTGCCCCTCGGTGAAGAACATCCTCTTGCTGGACTCGGAGGGAAAG
genomic: TCCCGACCACCGTCCTCGGCTCCCCGCCGTGAATCCATCATCCCGTAATGgtaggtagtc ... tttgatgcagGAGACCTGCCCCTCGGTGAAGAACATCCTCTTGCTGGACTCGGAGGGAAAG
EST: gi|211420230|gb|FL011436.1|FL011436
EST:     TCCCGACCACCGTCCTCGGCTCCCCGCCGTGAATCCATCATCCCGTAATG                         GAGACCTGCCCCTCGGTGAAGAACATCCTCTTGCTGGACTCGGAGGGAAAG
genomic: TCCCGACCACCGTCCTCGGCTCCCCGCCGTGAATCCATCATCCCGTAATGgtaggtagtc ... tttgatgcagGAGACCTGCCCCTCGGTGAAGAACATCCTCTTGCTGGACTCGGAGGGAAAG
EST: gi|22545780|gb|BU098154.1|BU098154
EST:     TCCCGACCACCGTCCTCGGCTCCCCGCCG-GAATCCATCATCCCGTAATG                         GAGACCTGCCCCTCGGTGAAGAACATCCTCTTGCTGGACTCGGAGGGAAAG
genomic: TCCCGACCACCGTCCTCGGCTCCCCGCCGTGAATCCATCATCCCGTAATGgtaggtagtc ... tttgatgcagGAGACCTGCCCCTCGGTGAAGAACATCCTCTTGCTGGACTCGGAGGGAAAG
EST: gi|30591528|gb|CD052418.1|CD052418
EST:     TCCCGACCACCGTCCTCGGCTCCCCGCCGTGAATCCATCATCCCGTAATG                         GAGACCTGCCCCTCGGTGAAGAACATCCTCTTGCTGGACTCGGAGGGAAAG
genomic: TCCCGACCACCGTCCTCGGCTCCCCGCCGTGAATCCATCATCCCGTAATGgtaggtagtc ... tttgatgcagGAGACCTGCCCCTCGGTGAAGAACATCCTCTTGCTGGACTCGGAGGGAAAG
EST: gi|211270446|gb|FL011426.1|FL011426
EST:     TCCCGACCACCGTCCTCGGCTCCCCGCCGTGAATCCATCATCCCGTAATG                         GAGACCTGCCCCTCGGTGAAGAACATCCTCTTGCTGGACTCGGAGGGAAAG
genomic: TCCCGACCACCGTCCTCGGCTCCCCGCCGTGAATCCATCATCCCGTAATGgtaggtagtc ... tttgatgcagGAGACCTGCCCCTCGGTGAAGAACATCCTCTTGCTGGACTCGGAGGGAAAG
EST: gi|211270449|gb|FL011429.1|FL011429
EST:     CCCGACCACCGTCCTCGRGCTCCCCGCCGTGAATCCATCATCCCGTAATG                         GAGACCTGCCCCTCGGTGAAGAACATCCTCTTGCTGGACTCGGAGGGAAAG
genomic: CCCGACCACCGTCCTCG-GCTCCCCGCCGTGAATCCATCATCCCGTAATGgtaggtagtc ... tttgatgcagGAGACCTGCCCCTCGGTGAAGAACATCCTCTTGCTGGACTCGGAGGGAAAG
EST: gi|211420231|gb|FL011437.1|FL011437
EST:     TCCCGACCACCGTCCTCGGCTCCCCGCCGTGAATCCATCATCCCGTAATG                         GAGACCTGCCCCTCGGTGAAGAACATCCTCTTGCTGGACTCGGAGGGAAAG
genomic: TCCCGACCACCGTCCTCGGCTCCCCGCCGTGAATCCATCATCCCGTAATGgtaggtagtc ... tttgatgcagGAGACCTGCCCCTCGGTGAAGAACATCCTCTTGCTGGACTCGGAGGGAAAG
EST: gi|86468241|gb|DY234611.1|DY234611
EST:     TCCCGACCACCGTCCTCGGCTCCCCGCCGTGAATCCATCATCCCGTAGTG                         GAGACCTGCCCCTCGGAGAAAAACATCCTCTTGCTGGACTCAGAGGGAAAG
genomic: TCCCGACCACCGTCCTCGGCTCCCCGCCGTGAATCCATCATCCCGTAATGgtaggtagtc ... tttgatgcagGAGACCTGCCCCTCGGTGAAGAACATCCTCTTGCTGGACTCGGAGGGAAAG
EST: gi|211420229|gb|FL011435.1|FL011435
EST:     TCCCGACCACCGTCCTCGGCTCCCCGCCGTGAATCCATCATCCCGTAATG                         GAGACCTGCCCCTCGGTGAAGAACATCCTCTTGCTGGACTCGGAGGGAAAG
genomic: TCCCGACCACCGTCCTCGGCTCCCCGCCGTGAATCCATCATCCCGTAATGgtaggtagtc ... tttgatgcagGAGACCTGCCCCTCGGTGAAGAACATCCTCTTGCTGGACTCGGAGGGAAAG
EST: gi|37622066|gb|CF675119.1|CF675119
EST:     TCCCGACCACCGTCCTCGGCTCCCCGCCGTGAATCCATCATCCCGTAATG                         GAGACCTGCCCCTCGGTGAAGAACATCCTCCTGCTGGACTCGGAGGGAAAG
genomic: TCCCGACCACCGTCCTCGGCTCCCCGCCGTGAATCCATCATCCCGTAATGgtaggtagtc ... tttgatgcagGAGACCTGCCCCTCGGTGAAGAACATCCTCTTGCTGGACTCGGAGGGAAAG
EST: gi|211420226|gb|FL011432.1|FL011432
EST:     TCCCGACCACCGTCCTCGGCTCCCCGCCGTGAATCCATCATCCCGTAATG                         GAGACCTGCCCCTCGGTGAAGAACATCCTCTTGCTGGACTCGGAGGGAAAG
genomic: TCCCGACCACCGTCCTCGGCTCCCCGCCGTGAATCCATCATCCCGTAATGgtaggtagtc ... tttgatgcagGAGACCTGCCCCTCGGTGAAGAACATCCTCTTGCTGGACTCGGAGGGAAAG
EST: gi|211420232|gb|FL011438.1|FL011438
EST:     TCCCGACCACCGTCCTCGGCTCCCCGCCGTGAATCCATCATCCCGTAATG                         GAGACCTGCCCGTCGGTGAAGAACATCCTCTTGCTGGACTCGGAGGGAAAG
genomic: TCCCGACCACCGTCCTCGGCTCCCCGCCGTGAATCCATCATCCCGTAATGgtaggtagtc ... tttgatgcagGAGACCTGCCCCTCGGTGAAGAACATCCTCTTGCTGGACTCGGAGGGAAAG
EST: gi|30591531|gb|CD052420.1|CD052420
EST:     TCCCGACCACCGTCCTCGGCTCCCCGCCGTGAATCCATCATCCCGTAATG                         GAGACCTGCCCCTCGGTGAAGAACATCCTCTTGCTGGACTCGGAGGGAAAG
genomic: TCCCGACCACCGTCCTCGGCTCCCCGCCGTGAATCCATCATCCCGTAATGgtaggtagtc ... tttgatgcagGAGACCTGCCCCTCGGTGAAGAACATCCTCTTGCTGGACTCGGAGGGAAAG
EST: gi|33093855|gb|CF053849.1|CF053849
EST:     TCCCGACCACCGTCCTCGGCTCCCCGCCGTGAATCCATCATCCCGTAATG                         GAGACCTGCCCCTCGGTGAAGAACATCCTCTTGCTGGACTCGGAGGGAAAG
genomic: TCCCGACCACCGTCCTCGGCTCCCCGCCGTGAATCCATCATCCCGTAATGgtaggtagtc ... tttgatgcagGAGACCTGCCCCTCGGTGAAGAACATCCTCTTGCTGGACTCGGAGGGAAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctgcgaatggttgttgcctcgatttgttaaagggttgaacctttgtttgatgcagGAGACCTGCCCCTCGGTGAAGAACATCCTCTTGCTGGACTCGGAGGGAAAGCGCGTCGCCGTAAAGTACTACAGCGATGACTGGCCTACTCTATCCGCGA
                                            gtttgat  putative branch site (score: 5)
                                       cctttgttt  CT-rich tract
                     atttgttaaa  TA-rich tract