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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagagctcgacatcaatttgttttgcccactgcagaagatgttttcgggtgataacatttctgttatcttggttccccagAGGCTTGAGGGGTAACTCACTGACTGGAACTTTGTCACCTGACATGTGCCAACTGACTGGCCTGTGGTACTT

Basic information

species Zea mays
transcript GRMZM2G082855_T05
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G082855_T03 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os06g03970.1 (Oryza sativa), 3'ss of exon 6
-----------gtaagagctcgacatcaatttgtttt-gcccactgcagaagatg----ttttcgggtgataacatttctgttatcttggttccccagAGGCTTGAGGGGTAACTCACTGACTGGAACTTTGTCACCTGACATGTGCCAACTGACTGGCCTGTGGTACTT
            ||| ||       || |  |||||| ||     | | |||| |    ||||| ||   ||||| ||   || ||||  | |  |||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
gtaagaatcctataaaagaaaattgtctaactgttttagctggtagtataagaaggtatttttcaggcattaacactttgcttctcttaat-cttcagAGGTTTGAGGGGTAACTCACTGACTGGAACTTTGTCACCTGACATGTGCCAACTGACTGGCCTGTGGTACTT

upper sequence: GRMZM2G082855_T03 (Zea mays), 3'ss of exon 6
lower sequence: Vv16s0022g02030.t01 (Vitis vinifera), 3'ss of exon 6
----------------------------------------------------------------------------------gtaagagc--tcgacatcaatttgttttgcccactgcagaagatgttttcgggtgataacatt--tctgttat-cttggttccccagAGGCTTGAGGGGTAACTCACTGACTGGAACTTTGTCACCTGACATGTGCCAACTGACTGGCCTGTGGTACTT
                                                                                  ||| ||||  | || ||   |  || || | || |   ||| ||      | |      |||   | |||| |  ||   | | ||| || ||| |||| || ||| |||||||||| ||||| ||||||||||||||| | || ||||||||||| ||
gtaagtaatagccgaatccaaatatagtcagaattaagaaccttgattctataattccaccagtaatggagtttaggttatggtaggagcctttgatatatttcagtgtttctca-tattgaatatacaactgtgctgcttcatccatttgttttgtttaacttcacagTGGGTTGCGGGGGAATTCATTGACTGGAACCTTGTCCCCTGACATGTGCCAATTAACAGGCCTGTGGTATTT
















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|86472326|gb|DY238696.1|DY238696
EST:     ACCGGCGACATCCCCAGGCTCATCTACTGGAATGAAGTACTACAATACCT                         AGGCTTGAGGGGTAACTCACTGACTGGAACTTTGTCACCTGACATGTGCCA
genomic: ACCGGCGACATCCCCAGGCTCATCTACTGGAATGAAGTACTACAATACCTgtaagagctc ... ggttccccagAGGCTTGAGGGGTAACTCACTGACTGGAACTTTGTCACCTGACATGTGCCA
EST: gi|148934014|gb|EC878019.2|EC878019
EST:     ACCGGCGACATCCCCAGGCTCATCTACTGGAATGAAGTACTACAATACCT                         AGGCTTGAGGGGTAACTCACTGACTGGAACTTTGTCACCTGACATGTGCCA
genomic: ACCGGCGACATCCCCAGGCTCATCTACTGGAATGAAGTACTACAATACCTgtaagagctc ... ggttccccagAGGCTTGAGGGGTAACTCACTGACTGGAACTTTGTCACCTGACATGTGCCA
EST: gi|148940443|gb|EC885241.2|EC885241
EST:     ACCGGCGACATCCCCAGGCTCATCTACTGGAATGAAGTACTACAATACCT                         AGGCTTGAGGGGTAACTCACTGACTGGAACTTTGTCACCTGACATGTGCCA
genomic: ACCGGCGACATCCCCAGGCTCATCTACTGGAATGAAGTACTACAATACCTgtaagagctc ... ggttccccagAGGCTTGAGGGGTAACTCACTGACTGGAACTTTGTCACCTGACATGTGCCA
EST: gi|149079906|gb|EE168912.2|EE168912
EST:     ACCGGCGACATCCCCAGGCTCATCTACTGGAATGAAGTACTACAATACCT                         AGGCTTGAGGGGTAACTCACTGACTGGAACTTTGTCACCTGACATGTGCCA
genomic: ACCGGCGACATCCCCAGGCTCATCTACTGGAATGAAGTACTACAATACCTgtaagagctc ... ggttccccagAGGCTTGAGGGGTAACTCACTGACTGGAACTTTGTCACCTGACATGTGCCA
EST: gi|148964982|gb|EC906062.2|EC906062
EST:     ACCGGCGACATCCCCAGGCTCATCTACTGGAATGAAGTACTACAATACCT                         AGGCTTGAGGGGTAACTCACTGACTGGAACTTTGTCACCTGACATGTGCCA
genomic: ACCGGCGACATCCCCAGGCTCATCTACTGGAATGAAGTACTACAATACCTgtaagagctc ... ggttccccagAGGCTTGAGGGGTAACTCACTGACTGGAACTTTGTCACCTGACATGTGCCA
EST: gi|148941048|gb|EC885905.2|EC885905
EST:     ACCGGCGACATCCCCAGGCTCATCTACTGGAATGAAGTACTACAATACCT                         AGGCTTGAGGGGTAACTCACTGACTGGAACTTTGTCACCTGACATGTGCCA
genomic: ACCGGCGACATCCCCAGGCTCATCTACTGGAATGAAGTACTACAATACCTgtaagagctc ... ggttccccagAGGCTTGAGGGGTAACTCACTGACTGGAACTTTGTCACCTGACATGTGCCA
EST: gi|149096378|gb|EE182110.2|EE182110
EST:     ACCGGCGACATCCCCAGGCTCATCTACTGGAATGAAGTACTACAATACCT                         AGGCTTGAGGGGTAACTCACTGACTGGAACTTTGTCACCTGACATGTGCCA
genomic: ACCGGCGACATCCCCAGGCTCATCTACTGGAATGAAGTACTACAATACCTgtaagagctc ... ggttccccagAGGCTTGAGGGGTAACTCACTGACTGGAACTTTGTCACCTGACATGTGCCA
EST: gi|101383199|gb|EB813654.1|EB813654
EST:     ACCGGCGACATCCCCAGGCTCATCTACTGGAATGAAGTACTACAATACCT                         AGGCTTGAGGGGTAACTCACTGACTGGAACTTTGTCACCTGACATGTGCCA
genomic: ACCGGCGACATCCCCAGGCTCATCTACTGGAATGAAGTACTACAATACCTgtaagagctc ... ggttccccagAGGCTTGAGGGGTAACTCACTGACTGGAACTTTGTCACCTGACATGTGCCA
EST: gi|148957491|gb|EC903572.2|EC903572
EST:     ACCGGCGACATCCCCAGGCTCATCTACTGGAATGAAGTACTACAATACCT                         AGGCTTGAGGGGTAACTCACTGACTGGAACTTTGTCACCTGACATGTGCCA
genomic: ACCGGCGACATCCCCAGGCTCATCTACTGGAATGAAGTACTACAATACCTgtaagagctc ... ggttccccagAGGCTTGAGGGGTAACTCACTGACTGGAACTTTGTCACCTGACATGTGCCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cccactgcagaagatgttttcgggtgataacatttctgttatcttggttccccagAGGCTTGAGGGGTAACTCACTGACTGGAACTTTGTCACCTGACATGTGCCAACTGACTGGCCTGTGGTACTT
                        tgataac  putative branch site (score: 2)
                                               ttcccc  putative PPT
                          ataacattt  TA-rich tract