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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttaacataactaagtttgtcctgttccatggtttacaatccattggctaacatttggaaccatcaattcatacagGTCCATCTCGGGGATACACCACACAGTTTAACTGAAAGTGATTTCGAGAGCTTGGCCCGTCGGACAGACGGGTTTTCTGGTTCTGACGTTGCTGTCTGT

Basic information

species Zea mays
transcript GRMZM2G088834_T01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G088834_T01 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os01g04814.3 (Oryza sativa), 3'ss of exon 5
---------------gttaacataactaagtttgtcctgttccatggtttacaatccattggctaacatttggaaccatcaattcatacagGTCCATCTCGGGGATACACCACACAGTTTAACTGAAAGTGATTTCGAGAGCTTGGCCCGTCGGACAGACGGGTTTTCTGGTTCTGACGTTGCTGTCTGT
                || |  |     |   |||| |||||  | ||| ||||||  |||||| |       |||| | |||| || ||||||||||||||||||||||||||||  |||| |||||||||||| |||| |||||| ||||| |||||||||||||||||||| ||  ||||||| |||
gtgcagaattgtccaattcagtttcaagaaaatgtcatgttctgttgtt-acaatct-ttggctgagggc--aaacctttaatttatccagGTCCATCTCGGGGATACACCACACAACTTAAATGAAAGTGATTTTGAGAACTTGGCTCGTCGAACAGACGGGTTTTCTGGTTCGGATATTGCTGTTTGT
















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|26559939|gb|CA832174.1|CA832174
EST:     GTATCTACATTCCACTACCTGACATGAAAGCAAGGCAACACATGTTTAAG                         GTCCATCTCGGGGATACACCACACAGTTTAACTGAAAGTGA
genomic: GTATCTACATTCCGCTACCTGACTTGAAAGCAAGGCAACACATGTTTAAGgttaacataa ... attcatacagGTCCATCTCGGGGATACACCACACAGTTTAACTGAAAGTGA
EST: gi|87157780|gb|DY402569.1|DY402569
EST:     GTATCTACATTCCACTACCTGACATGAAAGCAAGGCAACACATGTTTAAG                         GTCCATCTCGGGGATACACCACACAGTTTAACTGAAAGTGATTTCGAGAGC
genomic: GTATCTACATTCCGCTACCTGACTTGAAAGCAAGGCAACACATGTTTAAGgttaacataa ... attcatacagGTCCATCTCGGGGATACACCACACAGTTTAACTGAAAGTGATTTCGAGAGC
EST: gi|60341830|gb|DN208803.1|DN208803
EST:     GTATCTACATTCCGCTACCTGACTTGAAAGCAAGGCAACACATGTTTAAG                         GTCCATCTCGGGGATACACCACACAGTTTAACTGAAAGTGATTTCGAGAGC
genomic: GTATCTACATTCCGCTACCTGACTTGAAAGCAAGGCAACACATGTTTAAGgttaacataa ... attcatacagGTCCATCTCGGGGATACACCACACAGTTTAACTGAAAGTGATTTCGAGAGC
EST: gi|71325162|gb|DR799270.1|DR799270
EST:     GTATCTACATTCCGCTACCTGACTTGAAAGCAAGGCAACACATGTTTAAG                         GTCCATCTCGGGGATACACCACACAGTTTAACTGAAAGTGATTTCGAGAGC
genomic: GTATCTACATTCCGCTACCTGACTTGAAAGCAAGGCAACACATGTTTAAGgttaacataa ... attcatacagGTCCATCTCGGGGATACACCACACAGTTTAACTGAAAGTGATTTCGAGAGC
EST: gi|60345431|gb|DN212404.1|DN212404
EST:     GTATCTACATTCCGCTACCTGACTTGAAAGCAAGGCAACACATGTTTAAG                         GTCCATCTCGGGGATACACCACACAGTTTAACTGAAAGTGATTTCGAGAGC
genomic: GTATCTACATTCCGCTACCTGACTTGAAAGCAAGGCAACACATGTTTAAGgttaacataa ... attcatacagGTCCATCTCGGGGATACACCACACAGTTTAACTGAAAGTGATTTCGAGAGC
EST: gi|91874145|gb|EB404102.1|EB404102
EST:     GTATCTACATTCCGCTACCTGACTTGAAAGCAAGGCAACACATGTTTAAG                         GTCCATCTCGGGGATACACCACACAGTTTAACTGAAAGTGATTTCGAGAGC
genomic: GTATCTACATTCCGCTACCTGACTTGAAAGCAAGGCAACACATGTTTAAGgttaacataa ... attcatacagGTCCATCTCGGGGATACACCACACAGTTTAACTGAAAGTGATTTCGAGAGC
EST: gi|60358136|gb|DN225109.1|DN225109
EST:     GTATCTACATTCCGCTACCTGACTTGAAAGCAAGGCAACACATGTTTAAG                         GTCCATCTCGGGGATACACCACACAGTTTAACTGAAAGTGATTTCGAGAGC
genomic: GTATCTACATTCCGCTACCTGACTTGAAAGCAAGGCAACACATGTTTAAGgttaacataa ... attcatacagGTCCATCTCGGGGATACACCACACAGTTTAACTGAAAGTGATTTCGAGAGC
EST: gi|28987535|gb|CB351682.1|CB351682
EST:     GTATCTACATTCCGCTACCTGACTTGAAAGCAAGGCAACACATGTTTAAG                         GTCCATCTCGGGGATACACCACACAGTTTAACTGAAAGTGATTTCGAGAGC
genomic: GTATCTACATTCCGCTACCTGACTTGAAAGCAAGGCAACACATGTTTAAGgttaacataa ... attcatacagGTCCATCTCGGGGATACACCACACAGTTTAACTGAAAGTGATTTCGAGAGC
EST: gi|60346571|gb|DN213544.1|DN213544
EST:     GTATCTACATTCCGCTACCTGACTTGAAAGCAAGGCAACACATGTTTAAG                         GTCCATCTCGGGGATACACCACACAGTTTAACTGAAAGTGATTTCGAGAGC
genomic: GTATCTACATTCCGCTACCTGACTTGAAAGCAAGGCAACACATGTTTAAGgttaacataa ... attcatacagGTCCATCTCGGGGATACACCACACAGTTTAACTGAAAGTGATTTCGAGAGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctgttccatggtttacaatccattggctaacatttggaaccatcaattcatacagGTCCATCTCGGGGATACACCACACAGTTTAACTGAAAGTGATTTCGAGAGCTTGGCCCGTCGGACAGACGGGTTTTCTGGTTCTGACGTTGCTGTCTGT
                        ggctaac  putative branch site (score: 2)
           tttacaat  TA-rich tract