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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtgttcatggcagtcttttccttctgtcagtattatcatttttataagatgcatggacagtagttattttggttcccttacacaaataagcctacattacatattcatgttatcttattttcttttcccatgcagCATGTAGAGATCATAACACCCTCAGAAAAACAACGGCGCCTGGAGCAGATATTACGATCCCAGGATTCAGGTTCAAAGATATTAATATTTTGTACCACCA

Basic information

species Zea mays
transcript GRMZM2G078826_T01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G078826_T02 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os01g36860.1 (Oryza sativa), 3'ss of exon 4
-------------------gtatgtgttcatggcagtcttt--tccttctgtcag-tattatcatttttataagatgc-atggacagtagttat--tttg---gttcccttacacaaataagcctacattacatattcatgttatcttattttcttttcccatgcagCATGTAGAGATCATAACACCCTCAGAAAAACAACGGCGCCTGGAGCAGATATTACGATCCCAGGATTCAGGTTCAAAGATATTAATATTTTGTACCACCA
                   |  |   || |||  | |      ||||| |||    | | |||| ||   |  |||   |   ||||| | ||   ||||   || |  || ||| || ||     |||  | ||   |  |  | | ||| |||||| |   |||| |||| ||| | || ||||| || ||||| |  || || |||||||| || || |||||||||||||||||||| ||| || ||||||| |||||||| |
gtttgttccttaactgatgggctccattaatgatacttcaagatccttttgtttcctctcatcagttcctttggataagaaaaacagttggtactatttgaatgtacggtttcaccaaaaaaatcccatc-cttaagaagttactataattctctttttcttggcagAATGTGGAGCTGATCACACCGTCCGAAAAGCTTCGCCGTCTGGAGCAAATTTTGCGATCCCAGGATTCAGGTTCGAAGGTACTAATATTCTGTACCACTA
















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|211415103|gb|FL009785.1|FL009785
EST:     TGACAATTGGAAGTGTTGATTCACTTGTTGCTANTAGTTCTATTACTCAG                         CATGNAGAGATCATAACACCCTCAGAAAAACAACGGNGCCTGGAGCAGATA
genomic: TGACAATTGGAAGTGTTGATTCACTTGTTGCTAATAGTTCTATTACTCAGgtatgtgttc ... tcccatgcagCATGTAGAGATCATAACACCCTCAGAAAAACAACGGCGCCTGGAGCAGATA
EST: gi|30704655|gb|CD058574.1|CD058574
EST:     TGACAATTGGAAGTGTTGATTCACTTGTTGCTAATAGTTCTATTACTCAG                         CATGTAGAGATCATAACACCCTCAGAAAAACAACGGCGCCTGGAGCAGATA
genomic: TGACAATTGGAAGTGTTGATTCACTTGTTGCTAATAGTTCTATTACTCAGgtatgtgttc ... tcccatgcagCATGTAGAGATCATAACACCCTCAGAAAAACAACGGCGCCTGGAGCAGATA
EST: gi|31360358|gb|CD444715.1|CD444715
EST:     TGACAATTGGAAGTGTTGATTCACTTGTTGCTAATAGTTCTATTACTCAG                         CATGTAGAGATCATAACACCCTCAGAAAAACAACGGCGCCTGGAGCAGATA
genomic: TGACAATTGGAAGTGTTGATTCACTTGTTGCTAATAGTTCTATTACTCAGgtatgtgttc ... tcccatgcagCATGTAGAGATCATAACACCCTCAGAAAAACAACGGCGCCTGGAGCAGATA
EST: gi|87156102|gb|DY400891.1|DY400891
EST:     TGACAATTGGAAGTGTTGATTCACTTGTTGCTAATAGTTCTATTACTCAG                         CATGTAGAGATCATAACACCCTCAGAAAAACAACGGCGCCTGGAGCAGATA
genomic: TGACAATTGGAAGTGTTGATTCACTTGTTGCTAATAGTTCTATTACTCAGgtatgtgttc ... tcccatgcagCATGTAGAGATCATAACACCCTCAGAAAAACAACGGCGCCTGGAGCAGATA
EST: gi|22472442|gb|BU036922.1|BU036922
EST:     CTATTACTCAG                         CATGTAGAGATCATAACACCCTCAGAAAAACAACGGCGCCTGGAGCAGATA
genomic: CTATTACTCAGgtatgtgttc ... tcccatgcagCATGTAGAGATCATAACACCCTCAGAAAAACAACGGCGCCTGGAGCAGATA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cacaaataagcctacattacatattcatgttatcttattttcttttcccatgcagCATGTAGAGATCATAACACCCTCAGAAAAACAACGGCGCCTGGAGCAGATATTACGATCCCAGGATTCAGGTTCAAAGATATTAATATTTTGTACCACCA
                           tgttatcttattttct  CT-rich tract
                    atattcatgttatctt  TA-rich tract