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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tcgacaaattactttgttatgtggtcctgtcgtcctgagctttggttctttgttttaagtgtctggcttcgtaacatcatttttatatatactactgcagGAGTTTTGATCTCACTGAAGCACTTAGGCTCCAGTTGGAACTTCAAAAGCGGCTTCATGAACAGCTTGAG

Basic information

species Zea mays
transcript GRMZM2G162409_T01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G162409_T01 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os07g25710.4 (Oryza sativa), 3'ss of exon 5
tcgacaaat-tactttgttatgtggtcct-gtcgtcctgagctttggttctttgttttaagt-gtctggcttcgtaacatcatt--tttatatatactactgcagGAGTTTTGATCTCACTGAAGCACTTAGGCTCCAGTTGGAACTTCAAAAGCGGCTTCATGAACAGCTTGAG
     |||| | |  ||   ||  ||  | | |  | ||        | |||    |||     ||| |    ||   |   ||  ||  | ||| ||  |||||||  |||||||||||||| ||| |  | |||||||| ||||| |||||| ||||||||||||||||||||
-----aaatatgcaatggcctgctgttttagccaacttgtttgggcatccttaacattagaccatcttgtgaggtccgagtgttcattcttgtattctgttgcagGAACTTTGATCTCACTGAGGCATTGCGTCTCCAGTTAGAACTCCAAAAGAGGCTTCATGAACAGCTTGAG
















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|116813408|gb|EC855859.1|EC855859
EST:     GAAAAGAAAGTGGCATCAAAAGAAGATATACCATCTATTGACTTGAAAGG                         GAGTTTTGATCTCACTGAAGCACTTAGGCTCCAGTTGGAACTTCAAAAGCG
genomic: GAAAAGAAAGTGGCATCAAAAGAAGATATACCATCTATTGACTTGAAAGGgtatgtctgc ... actactgcagGAGTTTTGATCTCACTGAAGCACTTAGGCTCCAGTTGGAACTTCAAAAGCG
EST: gi|9742722|gb|BE518870.1|BE518870
EST:     GAAAAGAAAGTGGCATCAAAAGAAGATATACCATCTATTGACTTGAAAGG                         GAGTTTTGATCTCACTGAAGCACTTAGGCTCCAGTTGGAACTTCAAAAGCG
genomic: GAAAAGAAAGTGGCATCAAAAGAAGATATACCATCTATTGACTTGAAAGGgtatgtctgc ... actactgcagGAGTTTTGATCTCACTGAAGCACTTAGGCTCCAGTTGGAACTTCAAAAGCG
EST: gi|37386226|gb|CF630297.1|CF630297
EST:     GATATACCATCTATTGAC-TGAAGGG                         GAGTTTAGATCTCACTGAAGCACTTAGGCTCCAGTTGGAACTTCAAAAGCG
genomic: GATATACCATCTATTGACTTGAAAGGgtatgtctgc ... actactgcagGAGTTTTGATCTCACTGAAGCACTTAGGCTCCAGTTGGAACTTCAAAAGCG
EST: gi|51592708|gb|CV071854.1|CV071854
EST:     GAAAAGAAAGTGGCATCAAAAGAAGATATACCATCTATTGACTTGAAAGG                         GAGTTTTGATCTCACTGAAGCACTTAGGCTTCAGTTGGAACTTCAAAAGCG
genomic: GAAAAGAAAGTGGCATCAAAAGAAGATATACCATCTATTGACTTGAAAGGgtatgtctgc ... actactgcagGAGTTTTGATCTCACTGAAGCACTTAGGCTCCAGTTGGAACTTCAAAAGCG
EST: gi|211106908|gb|FK992455.1|FK992455
EST:     GAAAAGAAAGTGGCATCAAAAGAAGATATACCATCTATTGACTTGAAAGG                         GAGTTTTGATCTCACTGAAGCACTTAGGCTCCAGTTGGAACTTCAAAAGCG
genomic: GAAAAGAAAGTGGCATCAAAAGAAGATATACCATCTATTGACTTGAAAGGgtatgtctgc ... actactgcagGAGTTTTGATCTCACTGAAGCACTTAGGCTCCAGTTGGAACTTCAAAAGCG
EST: gi|13149966|gb|BG320288.1|BG320288
EST:     GAAAAGAAAGTGGCATCAAAAGAAGATATACCATCTATTGACTTGAAAGG                         GAGTTTTGATCTCACTGAAGCACTTAGGCTCCAGTTGGAACTTCAAAAGCG
genomic: GAAAAGAAAGTGGCATCAAAAGAAGATATACCATCTATTGACTTGAAAGGgtatgtctgc ... actactgcagGAGTTTTGATCTCACTGAAGCACTTAGGCTCCAGTTGGAACTTCAAAAGCG
EST: gi|71426491|gb|DR807541.1|DR807541
EST:     GAAAAGAAAGTGGCATCAAAAGAAGATATACCATCTATTGACTTGAAAGG                         GAGTTTTGATCTCACTGAAGCACTTAGGCTCCAGTTGGAACTTCAAAAGCG
genomic: GAAAAGAAAGTGGCATCAAAAGAAGATATACCATCTATTGACTTGAAAGGgtatgtctgc ... actactgcagGAGTTTTGATCTCACTGAAGCACTTAGGCTCCAGTTGGAACTTCAAAAGCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttctttgttttaagtgtctggcttcgtaacatcatttttatatatactactgcagGAGTTTTGATCTCACTGAAGCACTTAGGCTCCAGTTGGAACTTCAAAAGCGGCTTCATGAACAGCTTGAG
                       tcgtaac  putative branch site (score: 2)
                          taacatcatttttata  TA-rich tract