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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtgtgcacagttctttctattacccctcctgcactataatgcatatacattagttttgtgcattatctgtgctgcattgcagcctgtcattaatccattactcatgcttgtactccagggagtatctaacatcatgtgatgtttttgtatttaccctctctctgtaatgtgttgcagTTATGCATGAATTGCGCCTCATACACACTGATTTAAAGCCTGAGAACATTCTCCTTGTTTCTCCGGAGTACATTAAAGTGCCTGATTACAAA

Basic information

species Zea mays
transcript GRMZM2G063792_T06
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G063792_T04 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os12g27520.1 (Oryza sativa), 3'ss of exon 6
gtgtgtgcacagttctttctattacccctcct---gcacta--taatgcatatacattagttttgtgcattatctgtgctgcattgcagcctgtcattaatccattactcatgcttgtactccagggagtatctaacatc--atgtgat------gtttttgtatttaccctctctctgtaatgtgttgcagTTATGCATGAATTGCGCCTCATACACACTGATTTAAAGCCTGAGAACATTCTCCTTGTTTCTCCGGAGTACATTAAAGTGCCTGATTACAAA
||||||||||||||| |||| |||| | |  |    |||||  ||    || || |||| | ||    |   |   |||||   | |||    |   | || | ||  |     |  | ||    ||| || |||| | |  |  || |      |||| | |||||| | ||||| |    |||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||| ||||||||||| ||||||||||||||||| |||||||||
gtgtgtgcacagttccttctgttactcttattaccacactaattagcagatctagattattcttccataaattgcatgctgtcat-cagttgatagctgatgctttctttgc-ttcatccttttaggaatacctaatacctaacctgctttgtttgtttatatatttatcttctctgtaatgtgtgttgcagTTATGCATGAATTGCGCCTCATTCACACTGATTTAAAGCCTGAGAACATTCTTCTTGTTTCTCCAGAGTACATTAAAGTGCCCGATTACAAA

upper sequence: GRMZM2G063792_T04 (Zea mays), 3'ss of exon 6
lower sequence: Vv17s0000g09500.t01 (Vitis vinifera), 3'ss of exon 6
gtgtgtgcacagttctttctattacccctcctgcactataatgcatatacattagttttgtgcattatctgtgctgcattgcagcctgtcattaatccattactcatgcttgtactccagggagtatctaacatcatg-tgatgtttttgtatttaccctctctctgtaatgtgttgcagTTATGCATGAATTGCGCCTCATACACACTGATTTAAAGCCTGAGAACATTCTCCTTGTTTCTCCGGAGTACATTAAAGTGCCTGATTACAAA
                                                                               |  |  || |  ||| | | |   |     ||    |  |   ||  | |  |||  ||    ||||  || | ||      | |   ||||   |||||||||||||||| || ||||||||||| || ||||| ||||||||||| || || || || ||||| || ||  ||||||| || || ||||| 
------------------------------------------------------------------------------ctttaaactttgtttactgcttgcattggattttggatttaattagggttt--cattgtgactctgttgctgaagttgggtggttttgataatactttgcagTTATGCATGATTTACGCCTCATACATACGGATTTGAAGCCTGAGAATATACTTCTAGTGTCTCCAGAATATGTTAAAGTTCCAGACTACAAG

upper sequence: GRMZM2G063792_T04 (Zea mays), 3'ss of exon 6
lower sequence: Vv01s0137g00580.t01 (Vitis vinifera), 3'ss of exon 6
gtgtgtgcacagttctttctattacccctcctgcactataatgcatatacattagttttgtgcattatctgtgctgcattgcagcctgtcattaatccattactcatgcttgtactccagggagtatctaacatcatgtgatgtttttgtatttaccctctctctgtaatgtgttgcagTTATGCATGAATTGCGCCTCATACACACTGATTTAAAGCCTGAGAACATTCTCCTTGTTTCTCCGGAGTACATTAAAGTGCCTGATTACAAA
                                                                              ||      |   | ||||       |   | | | |       |  ||| |   ||| |     ||  |  | || ||  |  | || |||    ||||||| |||||||| |||| |||||| |||||||| || |||||||||||||| ||  |||||||||| || ||  | |||||  | || ||||| 
-----------------------------------------------------------------------------tttatgaaataaaaataatatggagtttgagat-ggataattttgtttatttgctatcctacagagtgctaatgttgactttgac-ctataaaaatttgcagTCATGCATGATTTGCACCTCATCCACACTGACTTGAAGCCTGAGAACATACTTTTTGTTTCTCCAGAATATGTAAAAGTATCAGACTACAAG

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|32838009|gb|CD977687.1|CD977687
EST:     AATTGCCCTAGTTCGGGAGTTTGCCAAACAACTGTTGGAATGTATAGCAT                         TTATGCATGAATTGCGCCTCATACACACTGATTTAAAGCCTGAGAACATTC
genomic: AATTGCCCTAGTTCGGGAGTTTGCCAAACAACTGTTGGAATGTATAGCATgtgtgtgcac ... tgtgttgcagTTATGCATGAATTGCGCCTCATACACACTGATTTAAAGCCTGAGAACATTC
EST: gi|60345282|gb|DN212255.1|DN212255
EST:     AATTGCCCTAGTTCGGGAGTTTGCCAAACAACTGTTGGAATGTATAGCAT                         TTATGCATGAATTGCGCCTCATACACACTGATTTAAAGCCTGAGAACATTC
genomic: AATTGCCCTAGTTCGGGAGTTTGCCAAACAACTGTTGGAATGTATAGCATgtgtgtgcac ... tgtgttgcagTTATGCATGAATTGCGCCTCATACACACTGATTTAAAGCCTGAGAACATTC
EST: gi|93015378|gb|EB640898.1|EB640898
EST:     AATTGCCCTAGTTCGGGAGTTTGCCAAACAACTGTTGGAATGTATAGCAT                         TTATGCATGAATTGCGCCTCATACACACTGATTTAAAGCCTGAGAACATTC
genomic: AATTGCCCTAGTTCGGGAGTTTGCCAAACAACTGTTGGAATGTATAGCATgtgtgtgcac ... tgtgttgcagTTATGCATGAATTGCGCCTCATACACACTGATTTAAAGCCTGAGAACATTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatctaacatcatgtgatgtttttgtatttaccctctctctgtaatgtgttgcagTTATGCATGAATTGCGCCTCATACACACTGATTTAAAGCCTGAGAACATTCTCCTTGTTTCTCCGGAGTACATTAAAGTGCCTGATTACAAA
 atctaac  putative branch site (score: 2)
                atgtttttgtattta  TA-rich tract