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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaggatctgttaatataccctctccccatcctatatcacattctgctcatacactaattggaatttccgcccttcttgacatgtcgacggtttagGCTATGCTGACCGACTTTGGCATGGCAAAAGAATTTGATGAAAACACTAGATCAAACTCAATGTGTGGTACTGTTGAGTACATGGCCCCAGAAATTTTTC

Basic information

species Zea mays
transcript GRMZM2G005869_T02
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G005869_T01 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os03g21620.1 (Oryza sativa), 3'ss of exon 4
gtaaggatctgttaatatac-cctctccccatcctatatcacatt--ctgctcatacactaattggaatttccgcccttcttgacatgtcgacggtttagGCTATGCTGACCGACTTTGGCATGGCAAAAGAATTTGATGAAAACACTAGATCAAACTCAATGTGTGGTACTGTTGAGTACATGGCCCCAGAAATTTTTC
|||||||||  |||||| |    | ||  || | | | | || ||  || || ||       | ||||||| ||   || || |  ||||     ||||||| |||||||| || |||||| ||||||| |||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||| |||
gtaaggatcctttaatacatatttttcttcaccttctctgactttatctactgattggtatttgggaatttacggaatttttcat-tgtc--ttatttagGCCATGCTGACTGATTTTGGCCTGGCAAAGGAATTTGATGAAAACACTAGATCAAACTCAATGTGTGGTACTGTTGAGTACATGGCTCCAGAAATTGTTC

upper sequence: GRMZM2G005869_T01 (Zea mays), 3'ss of exon 4
lower sequence: Vv08s0058g01440.t01 (Vitis vinifera), 3'ss of exon 4
gtaaggatctgttaatataccctctccccatcctatatcacattctgctc-atacac-taattggaatttc---cgccctt----cttgacatgtcgac--------ggtttagGCTATGCTGACCGACTTTGGCATGGCAAAAGAATTTGATGAAAACACTAGATCAAACTCAATGTGTGGTACTGTTGAGTACATGGCCCCAGAAATTTTTC
||| |  ||| |   | |  |     | |   || | || | || |  |   |     | | || ||| ||   | | ||     ||| ||||||              ||||||| ||| |||| || |||||| ||||||| ||||||||||| || || |||||||| ||||||||||| ||||| || || ||| | || ||||||||||
gtatgc-tctctcgctctctctctctctctctctttctctctttttcttttgtgtgtatgactgtaatatcattcactctctcaacttaacatgttactcattccttaatttagGCCATGTTGACTGATTTTGGCCTGGCAAAGGAATTTGATGAGAATACGAGATCAAATTCAATGTGTGGAACTGTAGAATATATGTCACCTGAAATTTTTC
















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|60338397|gb|DN205370.1|DN205370
EST:     TGCATAGAGATTTGAAGCCTGAGAACATCTTACTGGATGCTGATGGTCAT                         GCTATGCTGACCGACTTTGGCATGGCAAAAGAATTTGATGAAAACACTAGA
genomic: TGCATAGAGATTTGAAGCCTGAGAACATCTTACTGGATGCTGATGGTCATgtaaggatct ... gacggtttagGCTATGCTGACCGACTTTGGCATGGCAAAAGAATTTGATGAAAACACTAGA
EST: gi|61236452|gb|DN586205.1|DN586205
EST:     TGCATAGAGATTTGAAGCCTGAGAACATCTTACTGGATGCTGATGGTCAT                         GCTATGCTGACCGACTTTGGCATGGCAAAAGAATTTGATGAAAACACTAGA
genomic: TGCATAGAGATTTGAAGCCTGAGAACATCTTACTGGATGCTGATGGTCATgtaaggatct ... gacggtttagGCTATGCTGACCGACTTTGGCATGGCAAAAGAATTTGATGAAAACACTAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttctgctcatacactaattggaatttccgcccttcttgacatgtcgacggtttagGCTATGCTGACCGACTTTGGCATGGCAAAAGAATTTGATGAAAACACTAGATCAAACTCAATGTGTGGTACTGTTGAGTACATGGCCCCAGAAATTTTTC
            actaatt  TA-rich tract