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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgggtctcaattcagtttactgccctatcgaaccgtccctggattcttgattaaaatgggggacccgtggtgtttgatacatcctgtgagtaactgcactgacggagtaactgttcaatttgtgtgtttggacagATCAAGAGTGTTTTGGTCCAGTTGTATGCACGCCCGGGTGACTGCGTTCTTGATCTTGCTTGCGGGAAG

Basic information

species Zea mays
transcript GRMZM2G042398_T02
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G042398_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os08g08200.2 (Oryza sativa), 3'ss of exon 2
gtgggtctcaattcagtttactgccctatcgaaccgtccctggattc--ttgattaaaatgggggacccgtggtgtttgatacatcctg-tgagtaactgcactgacggagtaactgttcaatttgtgtgtttggacagATCAAGAGTGTTTTGGTCCAGTTGTATGCACGCCCGGGTGACTGCGTTCTTGATCTTGCTTGCGGGAAG
                 || |   ||||||   ||  ||||  ||||  ||||  ||    |  |     || |||||| |||| | || | |||  | |  | ||  |  ||||  ||| | |   |  | ||| ||||| ||||||||| || ||||| | || |||| ||| || ||||||||||||||||| ||||| || |||
--------------gtatttccttcctatccgtccacccctaaattcctttgacgaattcagatgtttattgatgtttggtacaacttgctaagtggccgtccgga--gcttaacccttccaatctcg-atgtgggcagATTAAGAGTGTTCTGATCCAGCTCTACGCACACCCCGGAGACTGCGTTCTTGATCTGGCTTGTGGAAAG
















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|32919824|gb|CF024636.1|CF024636
EST:     AGGAACGCGAGAACAGCCCCATCATCCACCTCAAGAAGCTCAACAACTGG                         ATCAAGAGTGTTTTGGTCCAGTTGTATGCACGCCCGGGTGACTGCGTTCTT
genomic: AGGAACGCGAGAACAGCCCCATCATCCACCTCAAGAAGCTCAACAACTGGgtgggtctca ... gtttggacagATCAAGAGTGTTTTGGTCCAGTTGTATGCACGCCCGGGTGACTGCGTTCTT
EST: gi|211031437|gb|FL127269.1|FL127269
EST:     AGGAACGCGAGAACAGCCCCATCATCCACCTCAAGAAGCTCAACAACTGG                         ATCAAGAGTGTTTTGGTCCAGTTGTATGCACGCCCGGGTGACTGCGTTCTT
genomic: AGGAACGCGAGAACAGCCCCATCATCCACCTCAAGAAGCTCAACAACTGGgtgggtctca ... gtttggacagATCAAGAGTGTTTTGGTCCAGTTGTATGCACGCCCGGGTGACTGCGTTCTT
EST: gi|211188173|gb|FL095400.1|FL095400
EST:     AGGAACGCGAGAACAGCCCCATCATCCACCTCAAGAAGCTCAACAACTGG                         ATCAAGAGTGTTTTGGTCCAGTTGTATGCACGCCCGGGTGA
genomic: AGGAACGCGAGAACAGCCCCATCATCCACCTCAAGAAGCTCAACAACTGGgtgggtctca ... gtttggacagATCAAGAGTGTTTTGGTCCAGTTGTATGCACGCCCGGGTGA
EST: gi|211185782|gb|FL095398.1|FL095398
EST:     AGGAACGCGAGAACAGCCCCATCATCCACCTCAAGAAGCTCAACAACTGG                         G
genomic: AGGAACGCGAGAACAGCCCCATCATCCACCTCAAGAAGCTCAACAACTGGgtgggtctca ... gtttggacag-
EST: gi|211185782|gb|FL095398.1|FL095398
EST:     AGGAACGCGAGAACAGCCCCATCATCCACCTCAAGAAGCTCAACAACTGG                         G
genomic: AGGAACGCGAGAACAGCCCCATCATCCACCTCAAGAAGCTCAACAACTGGgtgggtctca ... gtttggacag-
EST: gi|211188181|gb|FL095408.1|FL095408
EST:     AGGAACGCGAGAACAGCCCCATCATCCACCTCAAGAAGCTCAACAACTGG                         ATCAAGAGTGT
genomic: AGGAACGCGAGAACAGCCCCATCATCCACCTCAAGAAGCTCAACAACTGGgtgggtctca ... gtttggacagATCAAGAGTGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atcctgtgagtaactgcactgacggagtaactgttcaatttgtgtgtttggacagATCAAGAGTGTTTTGGTCCAGTTGTATGCACGCCCGGGTGACTGCGTTCTTGATCTTGCTTGCGGGAAG
                        gagtaac  putative branch site (score: 2)
                                 ttcaattt  TA-rich tract