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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtatgccatttgcttctctattcagtgaaggggaaatatcattaaatttatgtgcaacgatgatttcagATATGGACTAGCACACTCCAGAGAACAATATTAACAGCACATCCGATCATTGGTTTTCCAAAG

Basic information

species Zea mays
transcript GRMZM5G824405_T01
intron # 17
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G824405_T02 (Zea mays), 3'ss of exon 15
lower sequence: LOC_Os03g18310.2 (Oryza sativa), 3'ss of exon 16
gtaagtatgccatttgcttctc-tattcagtgaaggggaaatatcattaaatttatgtgcaacgatgatttcagATATGGACTAGCACACTCCAGAGAACAATATTAACAGCACATCCGATCATTGGTTTTCCAAAG
||||||||||  |||    ||  || |     |||        |  || || || ||||   |  |   ||||||||||||||||||||||||||||  ||||||||||||| || || |||||||| |||||||||
gtaagtatgctttttatcacttgtaattgagaaagaaacttctttcttgaacttgtgtgtggcatttgattcagATATGGACTAGCACACTCCAGAGGTCAATATTAACAGCGCAGCCTATCATTGGATTTCCAAAG

upper sequence: GRMZM5G824405_T02 (Zea mays), 3'ss of exon 15
lower sequence: Vv06s0004g06920.t01 (Vitis vinifera), 3'ss of exon 17
------------------------gtaagtatgccatttgcttctctattcagtgaaggggaaatatcattaa-atttatgtg---caacgatgatttcagATATGGACTAGCACACTCCAGAGAACAATATTAACAGCACATCCGATCATTGGTTTTCCAAAG
                         | | |||         |  | | |  | |  |   ||| | | || |  |||  ||||      |  || ||| ||||||||||||||||||| ||||||||||| ||||| |||  ||| ||  |||| || ||||||
taatgctttatactattctactagttgaatatatatggaagtcatgtgtaaattttaacagaattctaataagcattcttgtgattttgctgtggttt-agATATGGACTAGCACACTGCAGAGAACAATTTTAACGGCAAGTCCAATTGTTGGGTTCCCAAAG
















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|84980594|gb|DW530943.1|DW530943
EST:     AGCTTGCGAGCTTTGTGGAGAAGCGACTGAAATCCGAGCGGACTGCCTCT                         ATATGGACTAGCACACTCCAGAGAACAATATTAACAGCACATCCGATCATT
genomic: AGCTTGCGAGCTTTGTGGAGAAGCGACTGAAATCCGAGCGGACTGCCTCTgtaagtatgc ... atgatttcagATATGGACTAGCACACTCCAGAGAACAATATTAACAGCACATCCGATCATT
EST: gi|211189269|gb|FL030572.1|FL030572
EST:     AGCTTGCGAGCTTTGTGGAGAAGCGACTGAAATCCGAGCGGACTGCCTCT                         ATATGGACTAGCACACTCCAGAGAACAATATTAACAGCACATCCGATCATT
genomic: AGCTTGCGAGCTTTGTGGAGAAGCGACTGAAATCCGAGCGGACTGCCTCTgtaagtatgc ... atgatttcagATATGGACTAGCACACTCCAGAGAACAATATTAACAGCACATCCGATCATT
EST: gi|67015674|gb|CO444423.1|CO444423
EST:     AGCTTGCGAGCTTTGTGGAGAAGCGACTGAAATCCGAGCGGACTGCCTCT                         ATATGGACTAGCACACTCCAGAGAACAATATTAACAGCACATCCGATCATT
genomic: AGCTTGCGAGCTTTGTGGAGAAGCGACTGAAATCCGAGCGGACTGCCTCTgtaagtatgc ... atgatttcagATATGGACTAGCACACTCCAGAGAACAATATTAACAGCACATCCGATCATT
EST: gi|67010650|gb|CO439399.1|CO439399
EST:     AGCTTGCGAGCTTTGTGGAGAAGCGACTGAAATCCGAGCGGACTGCCTCT                         ATATGGACTAGCACACTCCAGAGAACAATATTAACAGCACATCCGATCATT
genomic: AGCTTGCGAGCTTTGTGGAGAAGCGACTGAAATCCGAGCGGACTGCCTCTgtaagtatgc ... atgatttcagATATGGACTAGCACACTCCAGAGAACAATATTAACAGCACATCCGATCATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctctattcagtgaaggggaaatatcattaaatttatgtgcaacgatgatttcagATATGGACTAGCACACTCCAGAGAACAATATTAACAGCACATCCGATCATTGGTTTTCCAAAG
                   aaatatcattaaattt  TA-rich tract