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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttgtttgcctaaaaaaaacacgctttaccactttattcggctagaagtttgcttggctgaggtggtaataagggttatttgcttcttatctgatgtgcagGAGGATGAGCTAGGATTGCCAGCGGTGCCTCGGGCATCACTTCGCAGTTAGAAATAATCTTGTGTTTCGATTTTAAGTTGGTGTGAAAACTCTGTAGTTT

Basic information

species Zea mays
transcript GRMZM2G069827_T03
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G069827_T03 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os01g01350.1 (Oryza sativa), 3'ss of exon 6
ttgtttgcctaaaaaaaacacgcttt------accactttattcggctagaagtttgcttggct-gaggtggtaataagggttatttgcttcttatctgatgtgcagGAGGATGAGCTAGGATTGCCAGCGGTGCCTCGGGCATCACTTCGCAGTTAGAA--ATAATCT-TGTGTTTCGATTTTAAGTTGGTGTGAAAACTCTGTAGTTT
        |||||| || || | |||      |||| ||   | ||   | ||||| | ||  |  || | ||| | |  |||   || | || |||||  ||||||| ||||||||||||||||||||| || ||||| |||||| | |||||||||||   ||||   |||   |    ||    ||||  |  |  |     |    
----acagctaaaacaaccatgttttgtatgaaccaattagattggtccgtagtttacctgttttaagcttgtactgaatgttgcctggtgct-atctg--gtgcagGTGGATGAGCTAGGATTGCCAGCAGTCCCTCGAGCATCAATCCGCAGTTAGAACAGTAATTCATGTACCTTTGCTTGTGATTGGCATTGA--CGTGAGAACC-
















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|32808501|gb|CD960735.1|CD960735
EST:     TACCTGCTGCACCAAGTCGCCCTGCAATGGTCCCAGCAGGCGGGCTGCAG                         GAGGATGAGCTAGGATTGCCAGCGGTGCCTCGGGCATCACTTCGCAGTTAG
genomic: TACCTGCTGCACCAAGTCGCCCTGCAATGGTCCCAGCAGGCGGGCTGCAGgtgatttatt ... tgatgtgcagGAGGATGAGCTAGGATTGCCAGCGGTGCCTCGGGCATCACTTCGCAGTTAG
EST: gi|5608282|gb|AI901949.1|AI901949
EST:     TACCTNCTGCACCAAGTCGCCCTGCAATGGTCCCAGCAGGCGGGCTGCAG                         GAGGATGAGCTAG
genomic: TACCTGCTGCACCAAGTCGCCCTGCAATGGTCCCAGCAGGCGGGCTGCAGgtgatttatt ... tgatgtgcagGAGGATGAGCTAG
EST: gi|211285438|gb|FL461534.1|FL461534
EST:     TACCTGCTGCACCAAGTCGCCCTGCAATGGTCCCAGCAGGCGGGCTGCAG                         GAGGATGAGCTAGGATTGCCAGCGGTGCCTCGGGCATCACTTCGCAGTTAG
genomic: TACCTGCTGCACCAAGTCGCCCTGCAATGGTCCCAGCAGGCGGGCTGCAGgtgatttatt ... tgatgtgcagGAGGATGAGCTAGGATTGCCAGCGGTGCCTCGGGCATCACTTCGCAGTTAG
EST: gi|21432410|gb|BQ547900.1|BQ547900
EST:     TACCTGCTGCACCAAGTCGCCCTGCAATGGTCCCAGCAGGCGGGCTGCAG                         GAGGATGAGCTAGGATTGCCAGCGGTGCCTCGGGCATCACTTCGCAGTTAG
genomic: TACCTGCTGCACCAAGTCGCCCTGCAATGGTCCCAGCAGGCGGGCTGCAGgtgatttatt ... tgatgtgcagGAGGATGAGCTAGGATTGCCAGCGGTGCCTCGGGCATCACTTCGCAGTTAG
EST: gi|60354422|gb|DN221395.1|DN221395
EST:     TACCTGCTGCACCAAGTCGCCCTGCAATGGTCCCAGCAGGCGGGCTGCAG                         GAGGATGAGCTAGGATTGCCAGCGGTGCCTCGGGCATCACTTCGCAGTTAG
genomic: TACCTGCTGCACCAAGTCGCCCTGCAATGGTCCCAGCAGGCGGGCTGCAGgtgatttatt ... tgatgtgcagGAGGATGAGCTAGGATTGCCAGCGGTGCCTCGGGCATCACTTCGCAGTTAG
EST: gi|211123474|gb|FL435178.1|FL435178
EST:     TACCTGCTGCACCAAGTCGCCCTGCAATGGTCCCAGCAGGCGGGCTGCAG                         GAGGATGAGCATAGGATTGCCAGCGGTGCCTCGGGCATCACTTCGCAGTTA
genomic: TACCTGCTGCACCAAGTCGCCCTGCAATGGTCCCAGCAGGCGGGCTGCAGgtgatttatt ... tgatgtgcagGAGGATGAGC-TAGGATTGCCAGCGGTGCCTCGGGCATCACTTCGCAGTTA
EST: gi|29543516|gb|CB603898.1|CB603898
EST:     TACCTGCTGC-CCAAGTCGCCCTGCAATGGTCCCAGCAGGCGGGCTGCAG                         GAGGATGAGCTAGGATTGCCAGCGGTGCCTCGGGCATC-CTTCGCAGTTAG
genomic: TACCTGCTGCACCAAGTCGCCCTGCAATGGTCCCAGCAGGCGGGCTGCAGgtgatttatt ... tgatgtgcagGAGGATGAGCTAGGATTGCCAGCGGTGCCTCGGGCATCACTTCGCAGTTAG
EST: gi|37375699|gb|CF624304.1|CF624304
EST:     TACCTGCTGCACCAAGTCGCCCTGCAATGGTCCCAGCAGGCGGGCTGCAG                         GAGGATGAGCTAGGATTGCCAGCGGTGCCTCGGGCATCACTTCGCAGTTAG
genomic: TACCTGCTGCACCAAGTCGCCCTGCAATGGTCCCAGCAGGCGGGCTGCAGgtgatttatt ... tgatgtgcagGAGGATGAGCTAGGATTGCCAGCGGTGCCTCGGGCATCACTTCGCAGTTAG
EST: gi|4646509|gb|AI491649.2|AI491649
EST:     TACCTGCTGCACCAAGTCGCCCTGCAATGGTCCCAGCAGGCGGGCTGCAG                         GAGGATGNAAGCTAAGGATTGCCCAACGGTGCCTCGGGCATCACTTCGCAG
genomic: TACCTGCTGCACCAAGTCGCCCTGCAATGGTCCCAGCAGGCGGGCTGCAGgtgatttatt ... tgatgtgcagGAGGATG-A-GCTA-GGATTGCC-AGCGGTGCCTCGGGCATCACTTCGCAG
EST: gi|76915903|gb|DV166159.1|DV166159
EST:     TACCTGCTGCACCAAGTCGCCCTGCAATGGTCCCAGCAGGCGGGCTGCAG                         GAGGATGAGCTAGGATTGCCAGCGGTGCCTCGGGCATCACTTCGCAGTTAG
genomic: TACCTGCTGCACCAAGTCGCCCTGCAATGGTCCCAGCAGGCGGGCTGCAGgtgatttatt ... tgatgtgcagGAGGATGAGCTAGGATTGCCAGCGGTGCCTCGGGCATCACTTCGCAGTTAG
EST: gi|32806248|gb|CD958482.1|CD958482
EST:     TACCTGCTGCACCAAGTCGCCCTGCAATGGTCCCAGCAGGCGGGCTGCAG                         GAGGATGAGCTAGGATTGCCAGCGGTGCCTCGGGCATCACTTCGCAGTTAG
genomic: TACCTGCTGCACCAAGTCGCCCTGCAATGGTCCCAGCAGGCGGGCTGCAGgtgatttatt ... tgatgtgcagGAGGATGAGCTAGGATTGCCAGCGGTGCCTCGGGCATCACTTCGCAGTTAG
EST: gi|211257952|gb|FL452751.1|FL452751
EST:     TACCTGCTGCACCAAGTCGCCCTGCAATGGTCCCAGCAGGCGGGCTGCAG                         GAGGATGAGCTAGGATTGCCAGCGGTGCCTCGGGCATCACTTCGCAGTTAG
genomic: TACCTGCTGCACCAAGTCGCCCTGCAATGGTCCCAGCAGGCGGGCTGCAGgtgatttatt ... tgatgtgcagGAGGATGAGCTAGGATTGCCAGCGGTGCCTCGGGCATCACTTCGCAGTTAG
EST: gi|21432431|gb|BQ547921.1|BQ547921
EST:     TACCTGCTGCACCAAGTCGCCCTGCAATGGTCCCAGCAGGCGGGCTGCAG                         GAGGATGAGCTAGGATTGCCAGCGGTGCCTCGGGCATCACTTCGCAGTTAG
genomic: TACCTGCTGCACCAAGTCGCCCTGCAATGGTCCCAGCAGGCGGGCTGCAGgtgatttatt ... tgatgtgcagGAGGATGAGCTAGGATTGCCAGCGGTGCCTCGGGCATCACTTCGCAGTTAG
EST: gi|32935617|gb|CF040429.1|CF040429
EST:     TACCTGCTGCACCAAGTCGCCCTGCAATGGTCCCAGCAGGCGGGCTGCAG                         GAGGATGAGCTAGGATTGCCAGCGGTGCCTCGGGCATCACTTCGCAGTTAG
genomic: TACCTGCTGCACCAAGTCGCCCTGCAATGGTCCCAGCAGGCGGGCTGCAGgtgatttatt ... tgatgtgcagGAGGATGAGCTAGGATTGCCAGCGGTGCCTCGGGCATCACTTCGCAGTTAG
EST: gi|211257951|gb|FL452750.1|FL452750
EST:     TACCTGCTGCACCAAGTCGCCCTGCAATGGTCCCAGCAGGCGGGCTGCAG                         GAGGATGAGCTAGGATTGCCAGCGGTGCCTCGGGCATCACTTCGCAGTTAG
genomic: TACCTGCTGCACCAAGTCGCCCTGCAATGGTCCCAGCAGGCGGGCTGCAGgtgatttatt ... tgatgtgcagGAGGATGAGCTAGGATTGCCAGCGGTGCCTCGGGCATCACTTCGCAGTTAG
EST: gi|8665725|gb|BE186541.1|BE186541
EST:     TACCTGCTGCACCAAGTCGCCCTGCAATGGTCCCAGCAGGCGGGCTGCAG                         GAGGATGAGCTAGGATTGCCAGCGGTGCCTCGGGCATCACTTCGCAGTTAG
genomic: TACCTGCTGCACCAAGTCGCCCTGCAATGGTCCCAGCAGGCGGGCTGCAGgtgatttatt ... tgatgtgcagGAGGATGAGCTAGGATTGCCAGCGGTGCCTCGGGCATCACTTCGCAGTTAG
EST: gi|71775453|gb|DR973331.1|DR973331
EST:     TACCTGCTGCACCAAGTCGCCCTGCAATGGTCCCAGCAGGCGGGCTGCAG                         GAGGATGAGCTAGGATTGCCAGCGGTGCCTCGGGCATCACTTCGCAGTTAG
genomic: TACCTGCTGCACCAAGTCGCCCTGCAATGGTCCCAGCAGGCGGGCTGCAGgtgatttatt ... tgatgtgcagGAGGATGAGCTAGGATTGCCAGCGGTGCCTCGGGCATCACTTCGCAGTTAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agtttgcttggctgaggtggtaataagggttatttgcttcttatctgatgtgcagGAGGATGAGCTAGGATTGCCAGCGGTGCCTCGGGCATCACTTCGCAGTTAGAAATAATCTTGTGTTTCGATTTTAAGTTGGTGTGAAAACTCTGTAGTTT
                                          atctgat  putative branch site (score: 4)
                                tttgcttcttatct  CT-rich tract
                    taataa  TA-rich tract