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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatatgtgtgagccatagtgaactgtatatgctttatatatgcaactgtttcttatactgccatgtttgcagCTTGTGCTTCGTTTTGCAAACCGCTTATTTTTGCCTCTCTGGAACCGTGATAACATAGCTAACGTACAG

Basic information

species Zea mays
transcript GRMZM2G031107_T02
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G031107_T01 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os02g38840.2 (Oryza sativa), 3'ss of exon 6
gtaatatgtgtgagccatagtgaactgtatatgctttatat---atgcaactgtttcttatactgccatgtttgcagCTTGTGCTTCGTTTTGCAAACCGCTTATTTTTGCCTCTCTGGAACCGTGATAACATAGCTAACGTACAG
||||  ||| || ||       |  |   |   |  |||||   |||| ||| |  | |||      || ||| |||||||||||||| ||||||||||| || ||  | ||||| ||||| ||||||||||| ||||| ||||||
gtaagttgtatg-gcttcgtctagttagttgaacgatatattccatgctactataacatatttcaatatattt-cagCTTGTGCTTCGCTTTGCAAACCGTTTGTTCCTACCTCTTTGGAATCGTGATAACATTGCTAATGTACAG

upper sequence: GRMZM2G031107_T01 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA19G22690.1 (Glycine max), 3'ss of exon 6
gtaatatgtgtgagccatagtgaactgtatat-----gctttatatatgcaac----tgtttcttatactgccatgtttg--cagCTTGTGCTTCGTTTTGCAAACCGCTTATTTTTGCCTCTCTGGAACCGTGATAACATAGCTAACGTACAG
||| ||  ||   ||  || ||      ||||     |||| ||| |     |    |   |||     || | ||| |   ||| | || ||||||||||||||||| |||||  ||||||| ||||||||||| ||||| ||||| || |||
gtagtaaatgattgct-tattggctctcatattgcttgcttcataaacttggcctaatccctctccatttgacttgtattaccagTTAGTACTTCGTTTTGCAAACCGATTATTCATGCCTCTATGGAACCGTGACAACATTGCTAATGTGCAG

upper sequence: GRMZM2G031107_T01 (Zea mays), 3'ss of exon 6
lower sequence: Vv14s0171g00490.t01 (Vitis vinifera), 3'ss of exon 6
-------------------------------------------------gtaatatg-tgtgagccatagtgaactgtatat-gctttatatatgcaactgtttc-ttatactgcc-atgtttgcagCTTGTGCTTCGTTTTGCAAACCGCTTATTTTTGCCTCTCTGGAACCGTGATAACATAGCTAACGTACAG
                                                  |||||   |||  | | | ||   |  ||| | |   | | |    |  | | || |||| |  |  |  ||||||| | || |||||||||||||| ||| | |||||||| |||||||||||||| ||||| | ||| ||||||
gtaatacatgtatcataaaaattgtgtctttatttgataaaaaaaaataataataaaatgtttgtctttgtatgccctattttgaaatgtctgctgatttctctccttatgccacttacatttgcagTTGGTACTTCGTTTTGCAAATCGCATGTTTTTGCCCCTCTGGAACCGTGACAACATTGATAATGTACAG

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|111146774|gb|EE258268.1|EE258268
EST:     AACTCTATAGAATTGACCACTATTTAGGAAAAGAGCTTGTCCAAAACTTG                         CTTGTGCTTCGTTTTGCAAACCGCTTATTTTTGCCTCTCTGGAACCGTGAT
genomic: AACTCTATAGAATTGACCACTATTTAGGAAAAGAGCTTGTCCAAAACCTGgtaatatgtg ... atgtttgcagCTTGTGCTTCGTTTTGCAAACCGCTTATTTTTGCCTCTCTGGAACCGTGAT
EST: gi|60672339|gb|DN475101.1|DN475101
EST:     AACTCTATAGAATTGACCACTATTTAGGAAAAGAGCTTGTCCAAAACTTG                         CTTGTGCTTCGTTTTGCAAACCGCTTATTTTTGCCTCTCTGGAACCGTGAT
genomic: AACTCTATAGAATTGACCACTATTTAGGAAAAGAGCTTGTCCAAAACCTGgtaatatgtg ... atgtttgcagCTTGTGCTTCGTTTTGCAAACCGCTTATTTTTGCCTCTCTGGAACCGTGAT
EST: gi|20301108|gb|BQ164051.1|BQ164051
EST:     AACTCTATAGAATTGACCACTATTTAGGAAAAGAGCTTGTCCAAAACTTG                         CTTGTGCTTCGTTTTGCAAACCGCTTATTTTTGCCTCTCTGGAACCGTGAT
genomic: AACTCTATAGAATTGACCACTATTTAGGAAAAGAGCTTGTCCAAAACCTGgtaatatgtg ... atgtttgcagCTTGTGCTTCGTTTTGCAAACCGCTTATTTTTGCCTCTCTGGAACCGTGAT
EST: gi|33103231|gb|CF063191.1|CF063191
EST:     AACTCTATAGAATTGACCACTATTTAGGAAAAGAGCTTGTCCAAAACCTG                         CTTGTGCTTCGTTTTGCAAACCGCTTATTTTTGCCTCTCTGGAACCGTGAT
genomic: AACTCTATAGAATTGACCACTATTTAGGAAAAGAGCTTGTCCAAAACCTGgtaatatgtg ... atgtttgcagCTTGTGCTTCGTTTTGCAAACCGCTTATTTTTGCCTCTCTGGAACCGTGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgaactgtatatgctttatatatgcaactgtttcttatactgccatgtttgcagCTTGTGCTTCGTTTTGCAAACCGCTTATTTTTGCCTCTCTGGAACCGTGATAACATAGCTAACGTACAG
        tatatgctttatatat  TA-rich tract