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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgctttcttgtagcccatggatcatttcttgcacacagcgccgcctcacacgttaccaaaaccaaacatgtatgtgttccattccatccagTACATTGTGAAGCTGGAGCAAGGAGGCCAAACCGTCTGCATCAGTGGGTTCATGGCGTATGACGTGCCACCGCCGCGTGGTCCTCTCTG

Basic information

species Zea mays
transcript GRMZM2G123029_T05
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G123029_T01 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os05g04630.6 (Oryza sativa), 3'ss of exon 9
----gtgctttcttg--tagcccatggatcatttcttgcacacagcgccg-cctcacacgttac--caaaaccaaacatgtatgtgttccattccatccagTACATTGTGAAGCTGGAGCAAGGAGGCCAAACCGTCTGCATCAGTGGGTTCATGGCGTATGACGTGCCACCGCCGCGTGGTCCTCTCTG
    || ||| ||    |         ||  |  ||   |  |    | | ||  |  | | ||  ||  |  |||  |       ||       || |||||||| ||||| |||||||||||||| ||||||||||||||||| |||||||||||||  ||| | || || || || |||||||| ||
ttcagttcttcctgcattgagatgcaaattttacctcaaattccttactgtccatagtcatcacatcattattaaattttctaacattt-gcaatatgcagTACATCGTGAAACTGGAGCAAGGAGGGCAAACCGTCTGCATCAGCGGGTTCATGGCGTTCGACATACCTCCACCACGCGGTCCTCTTTG
















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|211417811|gb|FL246180.1|FL246180
EST:     GCCTTGCGTTCACCATCGCAAACAAGACCTTCACCCTAACACCCCAGCAG                         TACATTGTGAAGCTGGAGCAAGGAGGCCAAACCGTCTGCATCAGTGGGTTC
genomic: GCCTTGCGTTCACCATCGCAAACAAGACCTTCACCCTAACACCCCAGCAGgtgctttctt ... ttccatccagTACATTGTGAAGCTGGAGCAAGGAGGCCAAACCGTCTGCATCAGTGGGTTC
EST: gi|149100422|gb|EE186497.2|EE186497
EST:     GCCTTGCGTTCACCATCGCAAACAAGACCTTCACCCTAACACCCCAGCAG                         TACATTGTGAAGCTGGAGCAAGGAGGCCAAACCGTCTGCATCAGTGGGTTC
genomic: GCCTTGCGTTCACCATCGCAAACAAGACCTTCACCCTAACACCCCAGCAGgtgctttctt ... ttccatccagTACATTGTGAAGCTGGAGCAAGGAGGCCAAACCGTCTGCATCAGTGGGTTC
EST: gi|78021643|gb|DV490030.1|DV490030
EST:     GCCTTGCGTTCACCATCGCAAACAAGACCTTCACCCTAACACCCCAGCAG                         TACATTGTGAAGCTGGAGCAAGGAGGCCAAACCGTCTGCATCAGTGGGTTC
genomic: GCCTTGCGTTCACCATCGCAAACAAGACCTTCACCCTAACACCCCAGCAGgtgctttctt ... ttccatccagTACATTGTGAAGCTGGAGCAAGGAGGCCAAACCGTCTGCATCAGTGGGTTC
EST: gi|110208372|gb|EC890269.1|EC890269
EST:     GCCTTGCGTTCACCATCGCAAACAAGACCTTCACCCTAACACCCCAGCAG                         TACATTGTGAAGCTGGAGCAAGGAGGCCAAACCGTCTGCATCAGTGGGTTC
genomic: GCCTTGCGTTCACCATCGCAAACAAGACCTTCACCCTAACACCCCAGCAGgtgctttctt ... ttccatccagTACATTGTGAAGCTGGAGCAAGGAGGCCAAACCGTCTGCATCAGTGGGTTC
EST: gi|14244924|gb|BG842862.2|BG842862
EST:     GCCTTGCGTTCACCATCGCAAACAAGACCTTCACCCTAACACCCCAGCAG                         TACATTGTGAAGCTGGAGCAAGGAGGCCAAACCGTCTGCATCAGTGGGTTC
genomic: GCCTTGCGTTCACCATCGCAAACAAGACCTTCACCCTAACACCCCAGCAGgtgctttctt ... ttccatccagTACATTGTGAAGCTGGAGCAAGGAGGCCAAACCGTCTGCATCAGTGGGTTC
EST: gi|148999547|gb|EE036519.2|EE036519
EST:     GCCTTGCGTTCACCATCGCAAACAAGACCTTCACCCTAACACCCCAGCAG                         TACATTGTGAAGCTGGAGCAAGGAGGCCAAACCGTCTGCATCAGTGGGTTC
genomic: GCCTTGCGTTCACCATCGCAAACAAGACCTTCACCCTAACACCCCAGCAGgtgctttctt ... ttccatccagTACATTGTGAAGCTGGAGCAAGGAGGCCAAACCGTCTGCATCAGTGGGTTC
EST: gi|211114340|gb|FL479352.1|FL479352
EST:     GCCTTGCGTTCACCATCGCAAACAAGACCTTCACCCTAACACCCGAGCAG                         TACATTGTGAAGCTGGAGCAAGGAGGCCAAACCGTCTGCATCAGTGGGTTC
genomic: GCCTTGCGTTCACCATCGCAAACAAGACCTTCACCCTAACACCCCAGCAGgtgctttctt ... ttccatccagTACATTGTGAAGCTGGAGCAAGGAGGCCAAACCGTCTGCATCAGTGGGTTC
EST: gi|32913325|gb|CF018137.1|CF018137
EST:     GCCTTGCGTTCACCATCGCAAACAAGACCTTCACCCTAACACCCGAGCAG                         TACATTGTGAAGCTGGAGCAAGGAGGCCAAACCGTCTGCATCAGTGGGTTC
genomic: GCCTTGCGTTCACCATCGCAAACAAGACCTTCACCCTAACACCCCAGCAGgtgctttctt ... ttccatccagTACATTGTGAAGCTGGAGCAAGGAGGCCAAACCGTCTGCATCAGTGGGTTC
EST: gi|7204603|gb|AW559186.1|AW559186
EST:     GCCTTGCGTTCACCATCGCAAACAAGACCTTCACCCTAACACCCGAGCAG                         TACATTGTGAAGCTGGAGCAAGGAGGCCAAACCGTCTGCATCAGTGGGTTC
genomic: GCCTTGCGTTCACCATCGCAAACAAGACCTTCACCCTAACACCCCAGCAGgtgctttctt ... ttccatccagTACATTGTGAAGCTGGAGCAAGGAGGCCAAACCGTCTGCATCAGTGGGTTC
EST: gi|149078277|gb|EE167036.2|EE167036
EST:     GCCTTGCGTTCACCATCGCAAACAAGACCTTCACCCTAACACCCCAGCAG                         TACATTGTGAAGCTGGAGCAAGGAGGCCAAACCGTCTGCATCAGTGGGTTC
genomic: GCCTTGCGTTCACCATCGCAAACAAGACCTTCACCCTAACACCCCAGCAGgtgctttctt ... ttccatccagTACATTGTGAAGCTGGAGCAAGGAGGCCAAACCGTCTGCATCAGTGGGTTC
EST: gi|211417815|gb|FL246184.1|FL246184
EST:     GCCTTGCGTTCACCATCGCAAACAAGACCTTCACCCTAACACCCGAGCAG                         TACATTGTGAAGCTGGAGCAAGGAGGCCAAACCGTCTGCATCAGTGGGTTC
genomic: GCCTTGCGTTCACCATCGCAAACAAGACCTTCACCCTAACACCCCAGCAGgtgctttctt ... ttccatccagTACATTGTGAAGCTGGAGCAAGGAGGCCAAACCGTCTGCATCAGTGGGTTC
EST: gi|93012558|gb|EB638078.1|EB638078
EST:     GCCTTGCGTTCACCATCGCAAACAAGACCTTCACCCTAACACCCCAGCAG                         TACATTGTGAAGCTGGAGCAAGGAGGCCAAACCGTCTGCATCAGTGGGTTC
genomic: GCCTTGCGTTCACCATCGCAAACAAGACCTTCACCCTAACACCCCAGCAGgtgctttctt ... ttccatccagTACATTGTGAAGCTGGAGCAAGGAGGCCAAACCGTCTGCATCAGTGGGTTC
EST: gi|13515812|gb|BG518088.1|BG518088
EST:     GCCTTGCGTTCACCATCGCAAACAAGACCTTCACCCTAACACCCCAGCAG                         TACATTGTGAAGCTGGAGCAAGGAGGCCAAACCGTCTGCATCAGTGGGTTC
genomic: GCCTTGCGTTCACCATCGCAAACAAGACCTTCACCCTAACACCCCAGCAGgtgctttctt ... ttccatccagTACATTGTGAAGCTGGAGCAAGGAGGCCAAACCGTCTGCATCAGTGGGTTC
EST: gi|16927660|gb|BM080729.1|BM080729
EST:     GCCTTGCGTTCACCATCGCAAACAAGACCTTCACCCTAACACCCCAGCAG                         TACATTGTGAAGCTGGAGCAAGGAGGCCAAACCGTATGCATCAGTGGGTTC
genomic: GCCTTGCGTTCACCATCGCAAACAAGACCTTCACCCTAACACCCCAGCAGgtgctttctt ... ttccatccagTACATTGTGAAGCTGGAGCAAGGAGGCCAAACCGTCTGCATCAGTGGGTTC
EST: gi|211453148|gb|FL447178.1|FL447178
EST:     GCCTTGCGTTCACCATCGCAAACAAGACCTTCACCCTAACACCCGAGCAG                         TACATTGTGAAGCTGGAGCAAGGAGGCCAAACCGTCTGCATCAGTGGGTTC
genomic: GCCTTGCGTTCACCATCGCAAACAAGACCTTCACCCTAACACCCCAGCAGgtgctttctt ... ttccatccagTACATTGTGAAGCTGGAGCAAGGAGGCCAAACCGTCTGCATCAGTGGGTTC
EST: gi|6827002|gb|AW330645.1|AW330645
EST:     GCCTTGCGTTCACCATCGCAAACAAGACCTTCACCCTAACACCCGAGCAG                         TACATTGTGAAGCTGGAGCAAGGAGGCCAAACCGTCTGCATCAGTGGGTTC
genomic: GCCTTGCGTTCACCATCGCAAACAAGACCTTCACCCTAACACCCCAGCAGgtgctttctt ... ttccatccagTACATTGTGAAGCTGGAGCAAGGAGGCCAAACCGTCTGCATCAGTGGGTTC
EST: gi|32859335|gb|CD999016.1|CD999016
EST:     GCCTTGCGTTCACCATCGCAAACAAGACCTTCACCCTAACACCCGAGCAG                         TACATTGTGAAGCTGGAGCAAGGAGGCCAAACCGTCTGCATCAGTGGGTTC
genomic: GCCTTGCGTTCACCATCGCAAACAAGACCTTCACCCTAACACCCCAGCAGgtgctttctt ... ttccatccagTACATTGTGAAGCTGGAGCAAGGAGGCCAAACCGTCTGCATCAGTGGGTTC
EST: gi|45567994|gb|CK985848.1|CK985848
EST:     GCCTTGCGTTCACCATCGCAAACAAGACCTTCACCCTAACACCCGAGCAG                         TACATTGTGAAGCTGGAGCAAGGAGGCCAAACCGTCTGCATCAGTGGGTTC
genomic: GCCTTGCGTTCACCATCGCAAACAAGACCTTCACCCTAACACCCCAGCAGgtgctttctt ... ttccatccagTACATTGTGAAGCTGGAGCAAGGAGGCCAAACCGTCTGCATCAGTGGGTTC
EST: gi|78109241|gb|DV527657.1|DV527657
EST:     GCCTTGCGTTCACCATCGCAAACAAGACCTTCACCCTAACCCCCCAGCAG                         TACATTGTGAAGCTGGAGCAAGGAGGCCAAACCGTCTGCATCAGTGGGTTC
genomic: GCCTTGCGTTCACCATCGCAAACAAGACCTTCACCCTAACACCCCAGCAGgtgctttctt ... ttccatccagTACATTGTGAAGCTGGAGCAAGGAGGCCAAACCGTCTGCATCAGTGGGTTC
EST: gi|149097402|gb|EE183255.2|EE183255
EST:     GCCTTGCGTTCACCATCGCAAACAAGACCTTCACCCTAACACCCCAGCAG                         TACATTGTGAAGCTGGAGCAAGGAGGCCAAACCGTCTGCATCAGTGGGTTC
genomic: GCCTTGCGTTCACCATCGCAAACAAGACCTTCACCCTAACACCCCAGCAGgtgctttctt ... ttccatccagTACATTGTGAAGCTGGAGCAAGGAGGCCAAACCGTCTGCATCAGTGGGTTC
EST: gi|40303709|gb|CK348096.1|CK348096
EST:     GCCTTGCGTTCACCATCGCAAACAAGACCTTCACCCTAACACCCGAGCAG                         TACATTGTGAAGCTGGAGCAAGGAGGCCAAACCGTCTGCATCAGTGGGTTC
genomic: GCCTTGCGTTCACCATCGCAAACAAGACCTTCACCCTAACACCCCAGCAGgtgctttctt ... ttccatccagTACATTGTGAAGCTGGAGCAAGGAGGCCAAACCGTCTGCATCAGTGGGTTC
EST: gi|6993891|gb|AW453105.1|AW453105
EST:     GCCTTGCGTTCACCATCGCAAACAAGACCTTCACCCTAACACCCGAGCAG                         TACATTGTGAAGCTGGAGCAAGGAGGCCAAACCGTCTGCATCAGTGGGTTC
genomic: GCCTTGCGTTCACCATCGCAAACAAGACCTTCACCCTAACACCCCAGCAGgtgctttctt ... ttccatccagTACATTGTGAAGCTGGAGCAAGGAGGCCAAACCGTCTGCATCAGTGGGTTC
EST: gi|148980773|gb|EE027343.2|EE027343
EST:     GCCTTGCGTTCACCATCGCAAACAAGACCTTCACCCTAACACCCCAGCAG                         TACATTGTGAAGCTGGAGCAAGGAGGCCAAACCGTCTGCATCAGTGGGTTC
genomic: GCCTTGCGTTCACCATCGCAAACAAGACCTTCACCCTAACACCCCAGCAGgtgctttctt ... ttccatccagTACATTGTGAAGCTGGAGCAAGGAGGCCAAACCGTCTGCATCAGTGGGTTC
EST: gi|18180292|gb|BM381502.1|BM381502
EST:     GCCTTGCGTTCACCATCGCAAACAAGACCTTCACCCTAACACCCCAGCAG                         TACATTGTGAAGCTGGAGCAAGGAGGCCAAACCGTCTGCATCAGTGGGTTC
genomic: GCCTTGCGTTCACCATCGCAAACAAGACCTTCACCCTAACACCCCAGCAGgtgctttctt ... ttccatccagTACATTGTGAAGCTGGAGCAAGGAGGCCAAACCGTCTGCATCAGTGGGTTC
EST: gi|211489971|gb|FL475496.1|FL475496
EST:     GCTTTGCGTTCACCATCGCAAACAAGACCTTCACCCTAACACCCGAGCAG                         TACATTGTGAAGCTGGAGCAAGGAGGCCAAACCGTCTGCATCAGTGGGTTC
genomic: GCCTTGCGTTCACCATCGCAAACAAGACCTTCACCCTAACACCCCAGCAGgtgctttctt ... ttccatccagTACATTGTGAAGCTGGAGCAAGGAGGCCAAACCGTCTGCATCAGTGGGTTC
EST: gi|149066691|gb|EE286828.2|EE286828
EST:     GCCTTGCGTTCACCATCGCAAACAAGACCTTCACCCTAACACCCCAGCAG                         TACATTGTGAAGCTGGAGCAAGGAGGCCAAACCGTCTGCATCAGTGGGTTC
genomic: GCCTTGCGTTCACCATCGCAAACAAGACCTTCACCCTAACACCCCAGCAGgtgctttctt ... ttccatccagTACATTGTGAAGCTGGAGCAAGGAGGCCAAACCGTCTGCATCAGTGGGTTC
EST: gi|110520668|gb|EE024852.1|EE024852
EST:     GCCTTGCGTTCACCATCGCAAACAAGACCTTCACCCTAACACCCCAGCAG                         TACATTGTGAAGCTGGAGCAAGGAGGCCAAACCGTCTGCATCAGTGGGTTC
genomic: GCCTTGCGTTCACCATCGCAAACAAGACCTTCACCCTAACACCCCAGCAGgtgctttctt ... ttccatccagTACATTGTGAAGCTGGAGCAAGGAGGCCAAACCGTCTGCATCAGTGGGTTC
EST: gi|211453149|gb|FL447179.1|FL447179
EST:     GCCTTGCGTTCACCATCGCAAACAAGACCTTCACCCTAACACCCGAGCAG                         TACATTGTGAAGCTGGAGCAAGGAGGCCAAACCGTCTGCATCAGTGGGTTC
genomic: GCCTTGCGTTCACCATCGCAAACAAGACCTTCACCCTAACACCCCAGCAGgtgctttctt ... ttccatccagTACATTGTGAAGCTGGAGCAAGGAGGCCAAACCGTCTGCATCAGTGGGTTC
EST: gi|211401889|gb|FL450336.1|FL450336
EST:     GCCTTGCGTTCACCATCGCAAACAAGACCTTCACCCTAACACCCGAGCAG                         TACATTGTGAAGCTGGAGCAAGGAGGCCAAACCGTCTGCATCAGTGGGTTC
genomic: GCCTTGCGTTCACCATCGCAAACAAGACCTTCACCCTAACACCCCAGCAGgtgctttctt ... ttccatccagTACATTGTGAAGCTGGAGCAAGGAGGCCAAACCGTCTGCATCAGTGGGTTC
EST: gi|60358971|gb|DN225944.1|DN225944
EST:     GCCTTGCGTTCACCATCGCAAACAAGACCTTCACCCTAACACCCCAGCAG                         TACATTGTGAAGCTGGAGCAAGGAGGCCAAACCGTCTGCATCAGTGGGTTC
genomic: GCCTTGCGTTCACCATCGCAAACAAGACCTTCACCCTAACACCCCAGCAGgtgctttctt ... ttccatccagTACATTGTGAAGCTGGAGCAAGGAGGCCAAACCGTCTGCATCAGTGGGTTC
EST: gi|6695716|gb|AW288794.1|AW288794
EST:     GCCTTGCGTTCACCATCGCAAACAAGACCTTCACCCTAACACCCGAGCAG                         TACATTGTGAAGCTGGAGCAAGGAGGCCAAACCGTCTGCATCAGTGGGTTC
genomic: GCCTTGCGTTCACCATCGCAAACAAGACCTTCACCCTAACACCCCAGCAGgtgctttctt ... ttccatccagTACATTGTGAAGCTGGAGCAAGGAGGCCAAACCGTCTGCATCAGTGGGTTC
EST: gi|5510772|gb|AI857156.1|AI857156
EST:     GCCTTGCGTTCACCATCGCAAACAAGACCTTCACCCTAACACCCCAGCAG                         TACATTGTGAAGCTGGAGCAAGGAGGCCAAACCGTCTGCATCAGTGGGTTC
genomic: GCCTTGCGTTCACCATCGCAAACAAGACCTTCACCCTAACACCCCAGCAGgtgctttctt ... ttccatccagTACATTGTGAAGCTGGAGCAAGGAGGCCAAACCGTCTGCATCAGTGGGTTC
EST: gi|91876727|gb|EB406684.1|EB406684
EST:     GCCTTGCGTTCACCATCGCAAACAAGACCTTCACCCTAACACCCCAGCAG                         TACATTGTGAAGCTGGAGCAAGGAGGCCAAACCGTCTGCATCAGTGGGTTC
genomic: GCCTTGCGTTCACCATCGCAAACAAGACCTTCACCCTAACACCCCAGCAGgtgctttctt ... ttccatccagTACATTGTGAAGCTGGAGCAAGGAGGCCAAACCGTCTGCATCAGTGGGTTC
EST: gi|91876845|gb|EB406802.1|EB406802
EST:     GCCTTGCGTTCACCATCGCAAACAAGACCTTCACCCTAACACCCCAGCAG                         TACATTGTGAAGCTGGAGCAAGGAGGCCAAACCGTCTGCATCAGTGGGTTC
genomic: GCCTTGCGTTCACCATCGCAAACAAGACCTTCACCCTAACACCCCAGCAGgtgctttctt ... ttccatccagTACATTGTGAAGCTGGAGCAAGGAGGCCAAACCGTCTGCATCAGTGGGTTC
EST: gi|110943954|gb|EE164111.1|EE164111
EST:     GCCTGGGGTTCGCCATCGCAAGCAAGACCTTCACCCTAACACCCCAGCAG                         TACATTGTGAAGCTGGAGCAAGGAGGCCAAACCGTCTGCATCAGTGGGTTC
genomic: GCCTTGCGTTCACCATCGCAAACAAGACCTTCACCCTAACACCCCAGCAGgtgctttctt ... ttccatccagTACATTGTGAAGCTGGAGCAAGGAGGCCAAACCGTCTGCATCAGTGGGTTC
EST: gi|148987680|gb|EE031561.2|EE031561
EST:     GCCTTGCGTTCACCATCGCAAACAAGACCTTCACCCTAACACCCCAGCAG                         TACATTGTGAAGCTGGAGCAAGGAGGCCAAACCGTCTGCATCAGTGGGTTC
genomic: GCCTTGCGTTCACCATCGCAAACAAGACCTTCACCCTAACACCCCAGCAGgtgctttctt ... ttccatccagTACATTGTGAAGCTGGAGCAAGGAGGCCAAACCGTCTGCATCAGTGGGTTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agcgccgcctcacacgttaccaaaaccaaacatgtatgtgttccattccatccagTACATTGTGAAGCTGGAGCAAGGAGGCCAAACCGTCTGCATCAGTGGGTTCATGGCGTATGACGTGCCACCGCCGCGTGGTCCTCTCTG
      gcctcac  putative branch site (score: 3)
                                        ttccattcc  putative PPT