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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagtctatttttatcttcagccactgtaatgggcatgaggcactggttgaaatggctctacctgtgttggttttacgggtgatgaaccttattttaatttggtcatgacatgccacagATCAAGTCCCATTTTAAGGACATAGGAGTCCATTCTGATGTCAAGTATATTGATCCAACATACATGCTCCGCGCTGTGCGAGCCAATGCATCCGATGCCA

Basic information

species Zea mays
transcript GRMZM2G009591_T01
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G009591_T02 (Zea mays), 3'ss of exon 12
lower sequence: LOC_Os10g26570.1 (Oryza sativa), 3'ss of exon 12
gttagtctatttttatcttcagccactgtaatgggcatgaggcactggttgaaatggctctacctgtgttg-gttttacgggtgatg----aaccttattttaatttggtcatgacatgccacagATCAAGTCCCATTTTAAGGACATAGGAGTCCATTCTGATGTCAAGTATATTGATCCAACATACATGCTCCGCGCTGTGCGAGCCAATGCATCCGATGCCA
                                                | |||    ||  ||||   |   || | |    | |      || |  | | ||| ||   | || |||||||||||||||| ||||||| ||||| |||||||| ||||||||||| ||||| |||||||| ||||||||| |||| |||||||| |||||||||||||||||||
---------------------------------------gtttgtccatcgaatgaccttcaccttgatgatgtatcaaaaatcacatgccaaaccaaatctaacttaaccgtgccatgccacagATCAAGGCCCATTTCAAGGAAATAGGAGTACATTCTGATGTGAAGTACATTGATCCTACATACATGGTCCGTGCTGTGCGTGCCAATGCATCCGATGCCA
















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|92088053|gb|EB484284.1|EB484284
EST:     CATCAGGGAACATGGTTCTTAGTGACATTGGTGTGCACCTTCAGCAGAAG                         ATCAAGTCCCATTTTAAGGACATAGGAGTCCATTCTGATGTCAAGGATATT
genomic: CATCAGGGAACATGGTTCTTAGTGACATTGGTGTGCACCTTCAGCAGAAGgttagtctat ... catgccacagATCAAGTCCCATTTTAAGGACATAGGAGTCCATTCTGATGTCAAGTATATT
EST: gi|78119430|gb|DV537814.1|DV537814
EST:     CATCAGGGAACATGGTTCTTAGTGACATTGGTGTGCACCTTCAGCAGAAG                         ATCAAGTCCCATTTTAAGGACATAGGAGTCCATTCTGATGTCAAGTATATT
genomic: CATCAGGGAACATGGTTCTTAGTGACATTGGTGTGCACCTTCAGCAGAAGgttagtctat ... catgccacagATCAAGTCCCATTTTAAGGACATAGGAGTCCATTCTGATGTCAAGTATATT
EST: gi|67014533|gb|CO443282.1|CO443282
EST:     CATCANGGAACATGGTTCTTAGTGACATTGGTGTGCACCTTCAGCAGAAG                         ATCAAGTCCCATTNTAAGGACATANGAGTNCATTCTGATGTCAAGTATATT
genomic: CATCAGGGAACATGGTTCTTAGTGACATTGGTGTGCACCTTCAGCAGAAGgttagtctat ... catgccacagATCAAGTCCCATTTTAAGGACATAGGAGTCCATTCTGATGTCAAGTATATT
EST: gi|160481643|gb|EY254213.1|EY254213
EST:     CATCAGGGAACATGGTTCTTAGTGACATTGGTGTGCACCTTCAGCAGAAG                         ATCAAGTCCCATTTTAAGGACATAGGAGTCCATTCTGATGTCAAGTATATT
genomic: CATCAGGGAACATGGTTCTTAGTGACATTGGTGTGCACCTTCAGCAGAAGgttagtctat ... catgccacagATCAAGTCCCATTTTAAGGACATAGGAGTCCATTCTGATGTCAAGTATATT
EST: gi|5713662|gb|AI943654.1|AI943654
EST:     CATCAGGGAACATGGTTNTTAGTGCCATTGGTGTGCCCCTTCAGCAGAAG                         ATCAAGTCCCATTTTAAGGCCATAGGAGTCCATTTTGATGTCAAGTATATT
genomic: CATCAGGGAACATGGTTCTTAGTGACATTGGTGTGCACCTTCAGCAGAAGgttagtctat ... catgccacagATCAAGTCCCATTTTAAGGACATAGGAGTCCATTCTGATGTCAAGTATATT
EST: gi|91056415|gb|EB166833.1|EB166833
EST:     CATCAGGGAACATGGTTCTTAGTGACATTGGTGTGCACCTTCAGCAGAAG                         ATCAAGTCCCATTTTAAGGACATAGGAGTCCATTCTGATGTCAAGTATATT
genomic: CATCAGGGAACATGGTTCTTAGTGACATTGGTGTGCACCTTCAGCAGAAGgttagtctat ... catgccacagATCAAGTCCCATTTTAAGGACATAGGAGTCCATTCTGATGTCAAGTATATT
EST: gi|94477845|gb|EB706803.1|EB706803
EST:     CATCAGGGAACATGGTTCTTAGTGACATTGGTGTGCACCTTCAGCAGAAG                         ATCAAGTCCCATTTTAAGGACATAGGAGTCCATTCTGATGTCAAGTATATT
genomic: CATCAGGGAACATGGTTCTTAGTGACATTGGTGTGCACCTTCAGCAGAAGgttagtctat ... catgccacagATCAAGTCCCATTTTAAGGACATAGGAGTCCATTCTGATGTCAAGTATATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgttggttttacgggtgatgaaccttattttaatttggtcatgacatgccacagATCAAGTCCCATTTTAAGGACATAGGAGTCCATTCTGATGTCAAGTATATTGATCCAACATACATGCTCCGCGCTGTGCGAGCCAATGCATCCGATGCCA
                            ttttaat  putative branch site (score: 3)
                     aaccttattttaattt  TA-rich tract