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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtggcgatctgatctccctcccactctgctctctccttcgccaaaccctaggtcacgcgggagtttgatggctgtgtgatttcgtatgtctattagGGCGTTCTTGCACAAGGGTTTCCTGTTGGATGCGGAGTGCGACCACCTCATCGCGCTG

Basic information

species Zea mays
transcript GRMZM2G168506_T02
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G168506_T02 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os10g27340.2 (Oryza sativa), 3'ss of exon 1
------gtggcgat---ctgatctccctcccactctgctctctccttcgccaaaccctaggtcacgcgggagtttgatggctgtgtgatttcgtatgtc-tattagGGCGTTCTTGCACAAGGGTTTCCTGTTGGATGCGGAGTGCGACCACCTCATCGCGCTG
      ||| |||    |    |   ||| | |||| ||||| ||   | | | |||   |  |    ||  |     |      |||         || |  |||||||||| |||||||||| ||||||  ||| ||||||||||| ||||| ||| |||||
gtgagtgtgacgactgacgagacgatctctctctct-ctctcccccatggccatcccgccgcgaattagggttcgtgcgatatcctgacccgccgcttcgttctagGGCGTTCCTGCACAAGGGGTTCCTGACGGACGCGGAGTGCGAGCACCTGATCTCGCTG
















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|211165313|gb|FK988373.1|FK988373
EST:     GCTGGTTCCTTCGACCCATCCCGCGTGGTTCAACTCTCTTGGCGCCCCAG                         GGCGTTCTTGCACAAGGGTTTCCTGTTGGATGCGGAGTGCGACCACCTCAT
genomic: GCTGGTTCCTTCGACCCATCCCGCGTGGTTCAACTCTCTTGGCGCCCCAGgtggcgatct ... tgtctattagGGCGTTCTTGCACAAGGGTTTCCTGTTGGATGCGGAGTGCGACCACCTCAT
EST: gi|94475796|gb|EB704754.1|EB704754
EST:     GCTGGTTCCTTCGACCCATCCCGCGTGGTTCAACTCTCTTGGCGCCCCAG                         GGCGTTCTTGCACAAGGGTTTCCTGTTGGATGCGGAGTGCGACCACCTCAT
genomic: GCTGGTTCCTTCGACCCATCCCGCGTGGTTCAACTCTCTTGGCGCCCCAGgtggcgatct ... tgtctattagGGCGTTCTTGCACAAGGGTTTCCTGTTGGATGCGGAGTGCGACCACCTCAT
EST: gi|18384715|gb|BM417914.1|BM417914
EST:     GCTGGTTCCTTCGACCCATCCCGCGTGGTTCAACTCTCTTGGCGCCCCAG                         GGCGTTCTTGCACAAGGGTTTCCTGTTGGATGCGGAGTGCGACCACCTCAT
genomic: GCTGGTTCCTTCGACCCATCCCGCGTGGTTCAACTCTCTTGGCGCCCCAGgtggcgatct ... tgtctattagGGCGTTCTTGCACAAGGGTTTCCTGTTGGATGCGGAGTGCGACCACCTCAT
EST: gi|50334167|gb|CO529293.1|CO529293
EST:     GCTGGTTCCTTCGACCCATCCCGCGTGGTTCAACTCTCTTGGCGCCCCAG                         GGCGTTCTTGCACAAGGGTTTCCTGTTGGATGCGGAGTGCGACCACCTCAT
genomic: GCTGGTTCCTTCGACCCATCCCGCGTGGTTCAACTCTCTTGGCGCCCCAGgtggcgatct ... tgtctattagGGCGTTCTTGCACAAGGGTTTCCTGTTGGATGCGGAGTGCGACCACCTCAT
EST: gi|211166978|gb|FK988389.1|FK988389
EST:     GCYGGTTCCTTCSMCCCATCCCGCGTGGTTCAACTCTCTTGGCGCCCCAG                         GGCGTTCTTGCACAAGGGTTTCCTGTTGGATGCGGAGTGCGACCACCTCAT
genomic: GCTGGTTCCTTCGACCCATCCCGCGTGGTTCAACTCTCTTGGCGCCCCAGgtggcgatct ... tgtctattagGGCGTTCTTGCACAAGGGTTTCCTGTTGGATGCGGAGTGCGACCACCTCAT
EST: gi|61118824|gb|DN559785.1|DN559785
EST:     GCTGGTTCCTTCGACCCATCCCGCGTGGTTCAACTCTCTTGGCGCCCCAG                         GGCGTTCTTGCACAAGGGTTTCCTGTTGGATGCGGAGTGCGACCACCTCAT
genomic: GCTGGTTCCTTCGACCCATCCCGCGTGGTTCAACTCTCTTGGCGCCCCAGgtggcgatct ... tgtctattagGGCGTTCTTGCACAAGGGTTTCCTGTTGGATGCGGAGTGCGACCACCTCAT
EST: gi|211165314|gb|FK988374.1|FK988374
EST:     GCTGGTTCCTTCGACCCATCCCGCGTGGTTCAACTCTCTTGGCGCCCCAG                         GGCGTTCTTGCACAAGGGTTTCCTGTTGGATGCGGAGTGCGACCACCTCAT
genomic: GCTGGTTCCTTCGACCCATCCCGCGTGGTTCAACTCTCTTGGCGCCCCAGgtggcgatct ... tgtctattagGGCGTTCTTGCACAAGGGTTTCCTGTTGGATGCGGAGTGCGACCACCTCAT
EST: gi|211165312|gb|FK988372.1|FK988372
EST:     GCTGGTTCCTTCGACCCATCCCGCGTGGTTCAACTCTCTTGGCGCCCCAG                         GGCGTTCTTGCACAAGGGTTTCCTGTTGGATGCGGAGTGCGACCACCTCAT
genomic: GCTGGTTCCTTCGACCCATCCCGCGTGGTTCAACTCTCTTGGCGCCCCAGgtggcgatct ... tgtctattagGGCGTTCTTGCACAAGGGTTTCCTGTTGGATGCGGAGTGCGACCACCTCAT
EST: gi|211166970|gb|FK988381.1|FK988381
EST:     GCTGGTTCCTTCGACCCATCCCGCGTGGTTCAACTCTCTTGGCGCCCCAG                         GGCGTTCTTGCACAAGGGTTTCCTGTTGGATGCGGAGTGCGACCACCTCAT
genomic: GCTGGTTCCTTCGACCCATCCCGCGTGGTTCAACTCTCTTGGCGCCCCAGgtggcgatct ... tgtctattagGGCGTTCTTGCACAAGGGTTTCCTGTTGGATGCGGAGTGCGACCACCTCAT
EST: gi|211166976|gb|FK988387.1|FK988387
EST:     GCTGGTTCCTTCGACCCATCCCGCGTGGTTCAACTCTCTTGGCGCCCCAG                         GGCGTTCTTGCACAAGGGTTTCCTGTTGGATGCGGAGTGCGACCACCTCAT
genomic: GCTGGTTCCTTCGACCCATCCCGCGTGGTTCAACTCTCTTGGCGCCCCAGgtggcgatct ... tgtctattagGGCGTTCTTGCACAAGGGTTTCCTGTTGGATGCGGAGTGCGACCACCTCAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caaaccctaggtcacgcgggagtttgatggctgtgtgatttcgtatgtctattagGGCGTTCTTGCACAAGGGTTTCCTGTTGGATGCGGAGTGCGACCACCTCATCGCGCTG
                     gtttgat  putative branch site (score: 5)
                                               tctatta  TA-rich tract