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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtgttcattttcttggtgcgttgttaatgttctatgtgaagttgttaattttctatgtgaagcgtcacatttcttggtaaattcctttctttctttacagATACAGTCGGCATGATAAACGGTCCAAGTTGCCTGGGTGGATACTCTCGCATTTGCATGATGCGCACCTAAATCTGAGCACTGATATGGCTCTCCATATA

Basic information

species Zea mays
transcript GRMZM2G097605_T01
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G097605_T01 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os05g05260.1 (Oryza sativa), 3'ss of exon 9
gtgttcattttcttggtgcgt--tgttaatgttctatgtgaagttgttaattttctatgtgaagcgtcacatttcttggtaa-attcctttctttctttacagATACAGTCGGCATGATAAACGGTCCAAGTTGCCTGGGTGGATACTCTCGCATTTGCATGATGCGCACCTAAATCTGAGCACTGATATGGCTCTCCATATA
 |  | ||||       || |  |||  || |||  ||      || | |       | | |  |  ||   || ||  ||  ||    ||  |    | |||||||||||| |||||||||||||| ||  |||||||||||||||| || || || |||||||||||||||||||||||||||||||||||| | ||||||
-ttctaatttgtcacacgcatcctgtccat-ttccctgccttactggtgaccaagctt-tcatactccaggattgttaatatcatggtatttctcacctgcagATACAGTCGCCATGATAAACGGTCTAAACTGCCTGGGTGGATACTGTCACACTTACATGATGCGCACCTAAATCTGAGCACTGATATGGCTTTGCATATA

upper sequence: GRMZM2G097605_T01 (Zea mays), 3'ss of exon 9
lower sequence: AT1G03190.2 (Arabidopsis thaliana), 3'ss of exon 10
gtgttcattttcttggtg-cgttgttaatgttctatgtgaagttgttaattttc-tatgtgaagcgtcacatttcttggtaaattcctttctttctttacagATACAGTCGGCATGATAAACGGTCCAAGTTGCCTGGGTGGATACTCTCGCATTTGCATGATGCGCACCTAAATCTGAGCACTGATATGGCTCTCCATATA
  ||           | | |   | ||      |||||    || | |  |  | | | |   |  | ||| | |   | || ||  |        || ||||||||| || |||||||| ||||||||  | ||||| |||||||| |||||| ||| |||||| ||| | ||||| ||||||||||||||| | || || 
-cgtaggacagaagagagacacagatatatgcttatgttggtttataatgtcacatttctatggtctaacaatacactgcaa-ttgatggtaaaacttgcagATACAGCCGTCATGATAAGCGGTCCAAACTACCTGGTTGGATACTTTCGCATCTGCGTGATGCACACTTGAATCTAAGCACTGATATGGCTATTCACATT

upper sequence: GRMZM2G097605_T01 (Zea mays), 3'ss of exon 9
lower sequence: Vv07s0104g00060.t01 (Vitis vinifera), 3'ss of exon 10
gtgttcattttcttggtgcgttgttaatgttctatgtgaagttg---ttaattttctatgtgaagcgtcacatttcttggtaaattcctttctttctttacagATACAGTCGGCATGATAAACGGTCCAAGTTGCCTGGGTGGATACTCTCGCATTTGCATGATGCGCACCTAAATCTGAGCACTGATATGGCTCTCCATATA
  |  |     |  | |   |    |||||  ||| || || |    | | |  ||| | | |  | | | | || |  |||   ||   |     | | ||| |||||||| ||||||||||| || || |||||||||||||| || || ||||| | |||||| ||||| ||| |||||||||| |||||| | ||||| 
-agccctgagacgagatatttcccaaatgtgttatttggagataatttcattcgtcttttttactcataatacttat--gtatggtcaactgaacttgtgcagGTACAGTCGTCATGATAAACGCTCTAAATTGCCTGGGTGGATTCTGTCACATTTACGTGATGCACACCTGAATTTGAGCACTGACATGGCTTTGCATATT

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|33093450|gb|CF053444.1|CF053444
EST:     GTTATTCGCTCCAAAGCTGATTATGGGATGATGATATTTGCTGACAAGAG                         ATACAGTCGGCATGATAAACGGTCCAAGTTGCCTGGGTGGATACTCTCGCA
genomic: GTTATTCGCTCCAAAGCTGATTATGGGATGATGATATTTGCTGACAAGAGgtacctgatt ... ttctttacagATACAGTCGGCATGATAAACGGTCCAAGTTGCCTGGGTGGATACTCTCGCA
EST: gi|86467670|gb|DY234040.1|DY234040
EST:     GTTATTCGCTCCAAAGCTGATTATGGGATGATGATATTTGCTGACAAGAG                         ATACAGTCGGCATGATAAACGGTCCAAGTTGCCTGGGTGGATACTCTCGCA
genomic: GTTATTCGCTCCAAAGCTGATTATGGGATGATGATATTTGCTGACAAGAGgtacctgatt ... ttctttacagATACAGTCGGCATGATAAACGGTCCAAGTTGCCTGGGTGGATACTCTCGCA
EST: gi|211462979|gb|FL459139.1|FL459139
EST:     GTTATTCGCTCCAAAGCTGATTATGGGATGATGATATTTGCTGACAAGAG                         ATACAGTCGGCATGATAAACGGTCCAAGTTGCCTGGGTGGATACTCTCGCA
genomic: GTTATTCGCTCCAAAGCTGATTATGGGATGATGATATTTGCTGACAAGAGgtacctgatt ... ttctttacagATACAGTCGGCATGATAAACGGTCCAAGTTGCCTGGGTGGATACTCTCGCA
EST: gi|37383190|gb|CF628585.1|CF628585
EST:     GTTATTCGCTCCAAAGCTGATTATGGGATGATGATATTTGCTGACAAGAG                         ATACAGTCGGCATGATAAACGGTCCAAGTTGCCTGGGTGGATACTCTCGCA
genomic: GTTATTCGCTCCAAAGCTGATTATGGGATGATGATATTTGCTGACAAGAGgtacctgatt ... ttctttacagATACAGTCGGCATGATAAACGGTCCAAGTTGCCTGGGTGGATACTCTCGCA
EST: gi|61118799|gb|DN559760.1|DN559760
EST:     GTTATTCGCTCCAAAGCTGATTATGGGATGATGATATTTGCTGACAAGAG                         ATACAGTCGGCATGATAAACGGTCCAAGTTGCCTGGGTGGATACTCTCGCA
genomic: GTTATTCGCTCCAAAGCTGATTATGGGATGATGATATTTGCTGACAAGAGgtacctgatt ... ttctttacagATACAGTCGGCATGATAAACGGTCCAAGTTGCCTGGGTGGATACTCTCGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taattttctatgtgaagcgtcacatttcttggtaaattcctttctttctttacagATACAGTCGGCATGATAAACGGTCCAAGTTGCCTGGGTGGATACTCTCGCATTTGCATGATGCGCACCTAAATCTGAGCACTGATATGGCTCTCCATATA
 tgttaat  putative branch site (score: 3)
                                    ttcctttctttcttta  putative PPT
                                            tttcttta  TA-rich tract