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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgcatctgcttgacaaccatactcatttgaacttcatcactactatattgtgctttgagaactattgtcatcagttaaatttacatgaaactggcctcagATATTTGACCTTTTCGATGTCAAGAAAAGGGGTGCCATTGATTTTGGTGACTTTGTCCGAGCTCTAAATGTGTTTCATCCAAATATCCCAATGGATGAAA

Basic information

species Zea mays
transcript GRMZM2G015324_T01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G015324_T05 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os10g41510.1 (Oryza sativa), 3'ss of exon 3
gtatgcatctgcttgacaaccatactcatttgaacttcatcactac-tatattg--tgctttgag-----aactattgtcatcagtt-aaatttacatgaaactggcct--cagATATTTGACCTTTTCGATGTCAAGAAAAGGGGTGCCATTGATTTTGGTGACTTTGTCCGAGCTCTAAATGTGTTTCATCCAAATATCCCAATGGATGAAA
|||| ||||| |||  ||||||| |||| ||    |   | | ||  |||  ||  |||||| ||     | ||  |   |||| || |||||||||   ||  | |||  ||||||||||||||||| ||||| ||||||||||| | ||| || |||||||||||||| |||||| ||||||| ||||||||||| ||||||||||| || |
gtatccatctccttatcaaccattctcacttaggttctgttagtaaatattctgagtgctttcaggcacaaccttattctatcacttgaaatttacacagaatggaccttgcagATATTTGACCTTTTTGATGTGAAGAAAAGGGGGGTCATCGACTTTGGTGACTTTGTTCGAGCTTTAAATGTATTTCATCCAAACATCCCAATGGAAGAGA

upper sequence: GRMZM2G015324_T05 (Zea mays), 3'ss of exon 3
lower sequence: Vv02s0236g00140.t01 (Vitis vinifera), 3'ss of exon 4
gtatgcatctgcttgacaaccatactcatttgaacttcatcactactatattgtgctttga-----gaactattgtc--atcagttaaatttacatgaaactggcctcagATATTTGACCTTTTCGATGTCAAGAAAAGGGGTGCCATTGATTTTGGTGACTTTGTCCGAGCTCTAAATGTGTTTCATCCAAATATCCCAATGGATGAAA
         |||    ||| |||  |  |||  ||    | | ||||    | || |||||     |||| ||| |   |||||  |||||   || |         ||||| ||||| ||||| ||||| |||   | ||| | |||||||||||||||||||||| |  | |||||||| || |||||||||  ||||   || || |
--------atgcactgcaagcattattcttttcaccatttaaatacttctatttgttttgaaagtggaacaattttttaatcag--aaattgggatcattgaacttgcagATCTTTGATCTTTTTGATGTTAAGCGGAAGGGAGTCATTGATTTTGGTGACTTTGTCAGGTCACTAAATGTTTTCCATCCAAATGCCCCACAAGAAGACA

upper sequence: GRMZM2G015324_T05 (Zea mays), 3'ss of exon 3
lower sequence: Vv02s0236g00150.t01 (Vitis vinifera), 3'ss of exon 4
gtatgcatctgcttgacaaccatactcatttgaacttcatcactactatat----tgtgctttgagaactattgtcatcagttaaatttacatgaaactggcctcagATATTTGACCTTTTCGATGTCAAGAAAAGGGGTGCCATTGATTTTGGTGACTTTGTCCGAGCTCTAAATGTGTTTCATCCAAATATCCCAATGGATGAAA
  ||||| ||||   |  |  || ||  |    | || |  ||| |||| |    ||   || ||  | | || | |||||  |||||   || |         ||||| ||||| ||||| ||||| |||   | ||| | |||||||||||||||||||||| |  | |||||||| || |||||||||  ||||   || || |
--atgca-ctgc--aagcattattcttttcaccatttaaatacttctatttgttttgaaattggaataattttttaatcag--aaattgggatcattaaacttgcagATCTTTGATCTTTTTGATGTTAAGCGGAAGGGAGTCATTGATTTTGGTGACTTTGTCAGGTCACTAAATGTTTTCCATCCAAATGCCCCACAAGAAGACA

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|9953024|gb|BE639607.1|BE639607
EST:     AGATAGCATTATTTAAGAATCAGAGGAAAGAAAATCTTTTCGCTAATCGG                         ATATTTGACCTTTTCGATGTCAAGAAAAGGGGTGCCATTGATTTTGGTGAC
genomic: AGTTAGCATTATTTAAGAATCAGAGGAAAGAAAATCTTTTCGCTAATCGGgtatgcatct ... ctggcctcagATATTTGACCTTTTCGATGTCAAGAAAAGGGGTGCCATTGATTTTGGTGAC
EST: gi|6102042|gb|AW126512.1|AW126512
EST:     ATCTTTTCGCTAATCGG                         ATATTTGACCTTTTCGATGTCAAGAAAAGGGGTGCCATTGATTTTGGTGAC
genomic: ATCTTTTCGCTAATCGGgtatgcatct ... ctggcctcagATATTTGACCTTTTCGATGTCAAGAAAAGGGGTGCCATTGATTTTGGTGAC
EST: gi|67024253|gb|CO453002.1|CO453002
EST:     AGTTAGCATTATTTAAGAATCAGAGGAAA-CAAATCTTTTCGCTAATCGG                         ATATTTGACCTTTTCGATGTCAAGAAAAGGGGTGCCATTGATTTTGGTGAC
genomic: AGTTAGCATTATTTAAGAATCAGAGGAAAGAAAATCTTTTCGCTAATCGGgtatgcatct ... ctggcctcagATATTTGACCTTTTCGATGTCAAGAAAAGGGGTGCCATTGATTTTGGTGAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tattgtgctttgagaactattgtcatcagttaaatttacatgaaactggcctcagATATTTGACCTTTTCGATGTCAAGAAAAGGGGTGCCATTGATTTTGGTGACTTTGTCCGAGCTCTAAATGTGTTTCATCCAAATATCCCAATGGATGAAA
                             ttaaatttacatgaaa  TA-rich tract