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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ctgagtgcaaggggaaatgaatagtctttgcagtgagctgaactaataaatagcttgtgtggtttaagaatatcttatcatatgcttgtatcatttgtagGCTGTGGAGCGGGCAGCTGGTACTGACGGCCATAAGATAACATACAGTGTCATAAAGCATCGGTTGGGGGATCTATTTTATCGCCTAGT

Basic information

species Zea mays
transcript GRMZM2G421857_T04
intron # 18
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G421857_T02 (Zea mays), 3'ss of exon 17
lower sequence: LOC_Os02g07870.1 (Oryza sativa), 3'ss of exon 17
ctgagtgcaaggggaaatgaatagtctttgcagtgagctgaactaataaatagcttgtgtg-gtttaagaatatcttatcatatgcttgtatcattt-gtagGCTGTGGAGCGGGCAGCTGGTACTGACGGCCATAAGATAACATACAGTGTCATAAAGCATCGGTTGGGGGATCTATTTTATCGCCTAGT
    ||  |      | | ||||   ||   | |  | |   |  ||| | |  | |  |  ||   |   ||        ||||||| |||  |||  ||||| |||||||||||||||||| |||| || || ||||| |||||||||||||||||||||||  |||| |||||||| || ||||||||
--ttgtttactcattactcaatataattacaaataggatattcccatacaaaagtagcataagtactattttaataatctgtatgcttttattgttttatagGCGGTGGAGCGGGCAGCTGGTGCTGATGGACAGAAGATTACATACAGTGTCATAAAGCATCGCATGGGCGATCTATTCTACCGCCTAGT
















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|32850183|gb|CD989864.1|CD989864
EST:     CCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAG                         GCTGTGGAGCGGGCAGCTGGTA
genomic: CCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAGgtaaggtctt ... tcatttgtagGCTGTGGAGCGGGCAGCTGGTA
EST: gi|32921243|gb|CF026055.1|CF026055
EST:     CCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAG                         GCTGTGGAGCGGGCAGCTGGT
genomic: CCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAGgtaaggtctt ... tcatttgtagGCTGTGGAGCGGGCAGCTGGT
EST: gi|67026160|gb|CO454909.1|CO454909
EST:     CTGTTTGGATGATGCGCAACATTATTCACTTNAACACATTGGCCAATCAG                         GCTGGTGGAACGGGCAGCTGGTACTGACCGCCCACA-GATAACATACAGTG
genomic: CCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAGgtaaggtctt ... tcatttgtagGCTG-TGGAGCGGGCAGCTGGTACTGACGGCC-ATAAGATAACATACAGTG
EST: gi|32845901|gb|CD985582.1|CD985582
EST:     CCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAG                         GCTGTGGAGCGGGCAGCTGGT
genomic: CCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAGgtaaggtctt ... tcatttgtagGCTGTGGAGCGGGCAGCTGGT
EST: gi|32922059|gb|CF026871.1|CF026871
EST:     CCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAG                         GCTGTGGAGCGGGCAGCTGGT
genomic: CCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAGgtaaggtctt ... tcatttgtagGCTGTGGAGCGGGCAGCTGGT
EST: gi|24774168|gb|CA409422.1|CA409422
EST:     CCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAG                         GCTGTGGAGCGGGCAGCTGGTACTGACGGCCATAAGATAACATACAGTGTC
genomic: CCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAGgtaaggtctt ... tcatttgtagGCTGTGGAGCGGGCAGCTGGTACTGACGGCCATAAGATAACATACAGTGTC
EST: gi|8368089|gb|BE051034.1|BE051034
EST:     CTGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAG                         GCTGTGGAGCGGGCAGCTGGTACTGACGGCCATAAGATAACATACAGTGTC
genomic: CCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAGgtaaggtctt ... tcatttgtagGCTGTGGAGCGGGCAGCTGGTACTGACGGCCATAAGATAACATACAGTGTC
EST: gi|32921648|gb|CF026460.1|CF026460
EST:     CCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAG                         GCTGTGGAGCGGGCAGCTGGT
genomic: CCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAGgtaaggtctt ... tcatttgtagGCTGTGGAGCGGGCAGCTGGT
EST: gi|211529162|gb|FL123428.1|FL123428
EST:     CCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAG                         GCTGTGGAGCGGGCAGCTGGTACTGACGGCCATAAGATAACATACAGTGTC
genomic: CCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAGgtaaggtctt ... tcatttgtagGCTGTGGAGCGGGCAGCTGGTACTGACGGCCATAAGATAACATACAGTGTC
EST: gi|6020503|gb|AW065431.1|AW065431
EST:     CCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAG                         GCTGTGGAGCGGGCAGCTGGTACTGACGGCCATAAGATAACATACAGTGTC
genomic: CCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAGgtaaggtctt ... tcatttgtagGCTGTGGAGCGGGCAGCTGGTACTGACGGCCATAAGATAACATACAGTGTC
EST: gi|32849884|gb|CD989565.1|CD989565
EST:     CCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAG                         GCTGTGGAGCGGGCAGCTGGTACTGACGGCCATAAGATAACATACAGTGTC
genomic: CCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAGgtaaggtctt ... tcatttgtagGCTGTGGAGCGGGCAGCTGGTACTGACGGCCATAAGATAACATACAGTGTC
EST: gi|32846431|gb|CD986112.1|CD986112
EST:     CCGTTTGAATGATGCGCAACATTATTCACTTCAACACATTGACAAATCAG                         GCTGTGGAGCGGGCAGCTGGT
genomic: CCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAGgtaaggtctt ... tcatttgtagGCTGTGGAGCGGGCAGCTGGT
EST: gi|32921100|gb|CF025912.1|CF025912
EST:     CCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAG                         GCTGTGGAGCGGGCAGCTGGT
genomic: CCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAGgtaaggtctt ... tcatttgtagGCTGTGGAGCGGGCAGCTGGT
EST: gi|32846734|gb|CD986415.1|CD986415
EST:     CCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAG                         GCTGTGGAGCGGGCAGCTGGTA
genomic: CCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAGgtaaggtctt ... tcatttgtagGCTGTGGAGCGGGCAGCTGGTA
EST: gi|8368090|gb|BE051035.1|BE051035
EST:     CTGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAG                         GCTGTGGAGCGGGCAGCTGGTACTGACGGCCATAAGATAACATACAGTGTC
genomic: CCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAGgtaaggtctt ... tcatttgtagGCTGTGGAGCGGGCAGCTGGTACTGACGGCCATAAGATAACATACAGTGTC
EST: gi|211156007|gb|FL123542.1|FL123542
EST:     CCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAG                         GCTGTGGAGCGGGCAGCTGGTACTGACGGCCATAAGATAACATACAGTGTC
genomic: CCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAGgtaaggtctt ... tcatttgtagGCTGTGGAGCGGGCAGCTGGTACTGACGGCCATAAGATAACATACAGTGTC
EST: gi|8665370|gb|BE186186.1|BE186186
EST:     CTGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAG                         GCTGTGGAGCGGGCAGCTGGTACTGACGGCCACAAGATAACATACAGTGTC
genomic: CCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAGgtaaggtctt ... tcatttgtagGCTGTGGAGCGGGCAGCTGGTACTGACGGCCATAAGATAACATACAGTGTC
EST: gi|40334940|gb|CK369010.1|CK369010
EST:     CCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAG                         GCTGTGGAGCGGGCAGCTGGTACTGACGGCCATAAGATAACATACAGTGTC
genomic: CCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAGgtaaggtctt ... tcatttgtagGCTGTGGAGCGGGCAGCTGGTACTGACGGCCATAAGATAACATACAGTGTC
EST: gi|6227177|gb|AW155706.1|AW155706
EST:     CCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAG                         GCTGTGGAGCGGGCAGCTGGTACTGACGGCCATAAGATAACATACAGTGTC
genomic: CCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAGgtaaggtctt ... tcatttgtagGCTGTGGAGCGGGCAGCTGGTACTGACGGCCATAAGATAACATACAGTGTC
EST: gi|32921742|gb|CF026554.1|CF026554
EST:     CCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAG                         GCTGTGGAGCGGGCAGCTGGT
genomic: CCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAGgtaaggtctt ... tcatttgtagGCTGTGGAGCGGGCAGCTGGT
EST: gi|32920116|gb|CF024928.1|CF024928
EST:     CCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAG                         GCTGTGGAGCGGGCAGCTGGT
genomic: CCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAGgtaaggtctt ... tcatttgtagGCTGTGGAGCGGGCAGCTGGT
EST: gi|32921546|gb|CF026358.1|CF026358
EST:     CCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAG                         GCTGTGGAGCGGGCAGCTGGT
genomic: CCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAGgtaaggtctt ... tcatttgtagGCTGTGGAGCGGGCAGCTGGT
EST: gi|60352649|gb|DN219622.1|DN219622
EST:     CCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAG                         GCTGTGGAGCGGGCAGCTGGTACTGACGGCCATAAGATAACATACAGTGTC
genomic: CCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAGgtaaggtctt ... tcatttgtagGCTGTGGAGCGGGCAGCTGGTACTGACGGCCATAAGATAACATACAGTGTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ataaatagcttgtgtggtttaagaatatcttatcatatgcttgtatcatttgtagGCTGTGGAGCGGGCAGCTGGTACTGACGGCCATAAGATAACATACAGTGTCATAAAGCATCGGTTGGGGGATCTATTTTATCGCCTAGT
 aactaat  putative branch site (score: 2)
                 tttaagaatatcttat  TA-rich tract