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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgcgcgccgatcagatgacagatgcccccctccgcgtgacgcccatcgcgtcagtacctgcccgtgagcctaggcctagcatagactgatccacgccagcggtttctgcgagaggagcgctttggtctcagtgatgggttctgacggaaccgggtgcttttggtggcgcagTGTTGGAACGGAGGTGGAGGGGCCGGCGGCGAAGGGGACGGCATCGCGACGGCCACCATCATGGTGCTTGGTGACACCTGCACGCGCGGGTGTCGATTCT

Basic information

species Zea mays
transcript GRMZM2G101698_T02
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G101698_T02 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os01g56310.1 (Oryza sativa), 3'ss of exon 1
gtacgcgcgccgatcagatgacagatgcccccctccgcgtgacgcccatcgcgtcagtacctgcccgtgagcctaggcctagcatagactgatccacgccagcggtttctgcgagaggagcgctttggtctcagtgatgggttctgacggaaccgggtgcttttggtggcgcagTGTTGGAACGGAGGTGGAGGGGCCGGCGGCGAAGGGGACGGCATCGCGACGGCCACCATCATGGTGCTTGGTGACACCTGCACGCGCGGGTGTCGATTCT
                                                  |     |   | | |     |  | || ||||   |   |||||| ||| |||  |||||||||||  |||                |   | ||            ||||  ||| ||||||||| |||||||| || |||||||| ||||| ||||| ||||||||||| ||||| |||||||||||||| ||||| ||||| |||||||| || || ||||
--------------------------------------------------gtacgcgattcagtcgtatcgtatgggactagagcaaggtgatcctcgcgagcaatttctgcgagaacagc----------------taaatcctt-----------tgctcctgg-ggcgcagTGCTGGAACGGTGGGGGAGGGGCGGGCGGGGAAGGCGACGGCATCGCCACGGCGACCATCATGGTGCTCGGTGATACCTGTACGCGCGGCTGCCGTTTCT

upper sequence: GRMZM2G101698_T02 (Zea mays), 3'ss of exon 1
lower sequence: PP1S12_246V6.1 (Physcomitrella patens), 3'ss of exon 1
gtacgcgcgccgatcagatgacagatgcccccctccgcgtgacgcccat-cgcgtcagtacctgcccgtgagcctaggcctagcatagactg-atccacgccagcggtttctgcgagag---gagcgctttggtctcagtgatgggttctgacggaaccgggtgcttttggtggcgcagTGTTGGAACGGAGGTGGAGGGGCCGGCGGCGAAGGGGACGGCATCGCGACGGCCACCATCATGGTGCTTGGTGACACCTGCACGCGCGGGTGTCGATTCT
        |        |||  ||||    |  |    | ||    |||  || | |  |   | | |  |   | ||  | || | |  |  |   | ||  | || |    ||       ||   || ||  |  |    || ||  ||||   |  ||    ||  |  ||  ||||||||||| || || ||||| || || || |||||||| ||||| || || ||||| |||||| |||| |||||||| ||||| ||||| || ||||| |
--------gtgagatttatgtgagatttagcggttattgggattgtcatgtgcattaaaatg-gtcgggcaatgtggg--tggcgtggttttcagtaaagctggtggatgaaacgctgttgtgaagactctg--cgtatctctgagtattgac---attggaacattgggtcgggtcagTGTTGGAATGGTGGCGGAGGAGCAGGGGGTGAAGGGGATGGCATTGCTACAGCCACTATCATGCTGCTCGGTGACACTTGCACTCGCGGATGCCGATTTT
















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|211319519|gb|FK953026.1|FK953026
EST:     GCGCTGCGCAGGGGGAGAAGTACGCTCGCCTGCGGGAGTCCATCGGCGAGCTCAAGCTCAACACCGTCTGCGTCGAGGCACAATGCCCCAACATCGGCGAG
genomic: GCGCTGCGCAGGGGGAGAAGTACGCTCGCCTGCGGGAGTCCATCGGCGAGCTCAAGCTCAACACCGTCTGCGTCGAGGCACAGTGCCCCAACATCGGCGAG
EST: gi|67023528|gb|CO452277.1|CO452277
EST:     CTGCGGGATTCCATCGGCGAGCTCAA-CTCAACACCGTCTGCGTCGAGGCACAATGCCCCAACATCGGCGAG
genomic: CTGCGGGAGTCCATCGGCGAGCTCAAGCTCAACACCGTCTGCGTCGAGGCACAGTGCCCCAACATCGGCGAG
EST: gi|149001281|gb|EE038564.2|EE038564
EST:     GCGCTGCGCAGGGGGAGAAGTACGCTCGCCTGCGGGAGTCCATCGGCGAGCTCAAGCTCAACACCGTCTGCGTCGAGGCACAGTGCCCCAACATCGGCGAG
genomic: GCGCTGCGCAGGGGGAGAAGTACGCTCGCCTGCGGGAGTCCATCGGCGAGCTCAAGCTCAACACCGTCTGCGTCGAGGCACAGTGCCCCAACATCGGCGAG
EST: gi|78112107|gb|DV530503.1|DV530503
EST:     GCGCTGCGCAGGGGGAGAAGTACGCTCGCCTGCGGGAGTCCATCGGCGAGCTCAAGCTCAACACCGTCTGCGTCGAGGCACAGTGCCCCAACATCGGCGAG
genomic: GCGCTGCGCAGGGGGAGAAGTACGCTCGCCTGCGGGAGTCCATCGGCGAGCTCAAGCTCAACACCGTCTGCGTCGAGGCACAGTGCCCCAACATCGGCGAG
EST: gi|71324730|gb|DR799071.1|DR799071
EST:     GCGCTGCGCAGGGGGAGAAGTACGCTCGCCTGCGGGAGTCCATCGGCGAGCTCAAGCTCAACACCGTCTGCGTCGAGGCACAGTGCCCCAACATCGGCGAG
genomic: GCGCTGCGCAGGGGGAGAAGTACGCTCGCCTGCGGGAGTCCATCGGCGAGCTCAAGCTCAACACCGTCTGCGTCGAGGCACAGTGCCCCAACATCGGCGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcgctttggtctcagtgatgggttctgacggaaccgggtgcttttggtggcgcagTGTTGGAACGGAGGTGGAGGGGCCGGCGGCGAAGGGGACGGCATCGCGACGGCCACCATCATGGTGCTTGGTGACACCTGCACGCGCGGGTGTCGATTCT
                      ttctgac  putative branch site (score: 2)