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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatatgagattcacccccttactgcacattatttacaatttcagctcaataattggaccctgccttctttgttcagGTTCCCTTCGCCCGGTCGTCATTAAACCATGATGATGTGTTTGTCTTAGATACTGAAAATAAGATATACCAGTTTAATGGTGCTAACTCCAATATCCAAG

Basic information

species Zea mays
transcript GRMZM2G047310_T02
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G047310_T02 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA03G29280.1 (Glycine max), 3'ss of exon 4
-----gtatatgagattcacccccttactgcacattatttacaatttcagctcaataattggaccct--gccttctttgttcagGTTCCCTTCGCCCGGTCGTCATTAAACCATGATGATGTGTTTGTCTTAGATACTGAAAATAAGATATACCAGTTTAATGGTGCTAACTCCAATATCCAAG
     || |     |||||    |||     |     |  ||| |    |   || |||  ||  |   |  ||| || | |||||||| || || ||||| ||| | || ||||||||||| ||  || |||| ||| | |||||||| || || || |||||||| |||||||||||||| |
gcatagtgttctctattcatgtacttttcaaatgcagtgcacattcattgactaaaaatgtgatacaaagttttccttatgcagGTTCCTTTTGCACGGTCTTCACTGAATCATGATGATGTATTCATCCTAGACACTCAGAATAAGATTTATCAATTCAATGGTGCAAACTCCAATATCCAGG

upper sequence: GRMZM2G047310_T02 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA19G32010.1 (Glycine max), 3'ss of exon 5
--------------------gtatatgagattcacccccttactgcacattatttacaatttcagctcaataattggaccct--gccttctttgttcagGTTCCCTTCGCCCGGTCGTCATTAAACCATGATGATGTGTTTGTCTTAGATACTGAAAATAAGATATACCAGTTTAATGGTGCTAACTCCAATATCCAAG
                     | |     |||||    |||     |     |  ||| |    ||  || |||  ||  |   |  ||  || | ||||| || || || ||||| ||||| || ||||||||||| ||  || |||| ||| | |||||||| || || || |||||||| |||||||||||||| |
gtcagaataaaacaggcacaatgttctctattcatgtacttttcaaattcagtgcacattcgttgcctaaaaatgtgatacaaagttttgcttatgcagGTCCCTTTTGCACGGTCTTCATTGAATCATGATGATGTATTCATCCTAGACACTCAGAATAAGATTTATCAATTCAATGGTGCAAACTCCAATATCCAGG

upper sequence: GRMZM2G047310_T02 (Zea mays), 3'ss of exon 5
lower sequence: Vv08s0007g08690.t01 (Vitis vinifera), 3'ss of exon 4
---gtatatgagattcacccccttactgcacattatttacaatttcagctcaataattggac-cctgccttct--ttgttcagGTTCCCTTCGCCCGGTCGTCATTAAACCATGATGATGTGTTTGTCTTAGATACTGAAAATAAGATATACCAGTTTAATGGTGCTAACTCCAATATCCAAG
   ||||||       ||     |         || | ||  |  | |  |   |  ||| | ||||| || |  |||| ||||| ||||| || ||||| ||| |||| || |||||||||||| || | || || |||||||| || || ||||| |||||||| || ||||||||||| |
gtagtatattctcccaacatgtatttcatgatctaatcacgttcactgtgctgcagctggtcacctgcattttggttgtgcagGTCCCCTTTGCTCGGTCTTCACTAAATCACGATGATGTGTTTATCCTGGACACAGAAAATAAAATTTATCAGTTCAATGGTGCAAATTCCAATATCCAGG

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|76284001|gb|DV023569.1|DV023569
EST:     AAACAC-GTTGTATATATGCAGAGGGAAGAGAGCTAATCGGGTTAAAGAG                         GTTCCCTTCGCCCGGTCGTCATTAAACCATGATGATGTGTTTGTCTTAGAT
genomic: AAACACGGTTGTATATATGCAGAGGGAAGAGAGCTATTCGGGTTAAAGAGgtatatgaga ... ctttgttcagGTTCCCTTCGCCCGGTCGTCATTAAACCATGATGATGTGTTTGTCTTAGAT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctgcacattatttacaatttcagctcaataattggaccctgccttctttgttcagGTTCCCTTCGCCCGGTCGTCATTAAACCATGATGATGTGTTTGTCTTAGATACTGAAAATAAGATATACCAGTTTAATGGTGCTAACTCCAATATCCAAG
                                    ccctgccttctttgtt  CT-rich tract
      attatttacaatttca  TA-rich tract