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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...agtgtagaagttgttctcgtaaaagttatgggtacattatggctttgactgcacatgtgggtctacaattaaatgcattattgtgacataacattcacagAAATCAGGATGATGCACCAGAAAACAACCCTAGACGCCTGCGTCCTGGGAAAGTATCTCCACGCCTTAGTGTTCCCAATCATATACAACGGCCTCCATAT

Basic information

species Zea mays
transcript GRMZM2G101438_T04
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G101438_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os02g52420.1 (Oryza sativa), 3'ss of exon 2
------agtgtagaagttgttctcgtaaaagttatgggtacattatggctttgactgcacatgtgggtctacaattaaatgcattattgtgacataacattcacagAAATCAGGATGATGCACCAGAAAACAACCCTAGACGCCTGCGTCCTGGGAAAGTATCTCCACGCCTTAGTGTTCCCAATCATATACAACGGCCTCCATAT
      | | |  |    ||| |  |  ||    |||| ||   | | |    |    | |||  |||  |||   || |  ||||||      |||  ||  ||||  ||||  |||   ||| ||| | |||||||||||||| || ||||||||||||||||| || || || |||||||| |||||||| ||||| ||||||
tagaataatctgtattgagttattttggaaacactgggcac--caggaccc--aacataaatgctggtgaacaga-aagttaattatttcattgtaatctt-gcagAGGTCAGAGTGACAAACCGGAAGATAACCCTAGACGCCTACGGCCTGGGAAAGTATCTCCTCGTCTAAGCGTTCCCAAACATATACAGCGGCCACCATAT
















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|78075681|gb|DV504115.1|DV504115
EST:     CAAGCAACGAGAACGCTATGCAACTTGGTGGATATCCTATTTAACAGGAG                         AAATCAGGATGATGCACCAGAAAACAACCCTAGACGCCTGCGTCCTGGGAA
genomic: CAAGCAACGAGAACGCTATGCAACTTGGTGGATATCCTATTTAACAGGAGgtgagcttta ... acattcacagAAATCAGGATGATGCACCAGAAAACAACCCTAGACGCCTGCGTCCTGGGAA
EST: gi|101399011|gb|EB821378.1|EB821378
EST:     CAAGCAACGAGAACGCTATGCAACTTGGTGGATATCCTATTTAACAGGAG                         AAATCAGGATGATGCACCAGAAAACAACCCTAGACGCCTGCGTCCTGGGAA
genomic: CAAGCAACGAGAACGCTATGCAACTTGGTGGATATCCTATTTAACAGGAGgtgagcttta ... acattcacagAAATCAGGATGATGCACCAGAAAACAACCCTAGACGCCTGCGTCCTGGGAA
EST: gi|76912468|gb|DV164746.1|DV164746
EST:     CAAGCAACGAGAACGCTATGCAACTTGGTGGATATCCTATTTAACAGGAG                         AAATCAGGATGATGCACCAGAAAACAACCCTAGACGCCTGCGTCCTGGGAA
genomic: CAAGCAACGAGAACGCTATGCAACTTGGTGGATATCCTATTTAACAGGAGgtgagcttta ... acattcacagAAATCAGGATGATGCACCAGAAAACAACCCTAGACGCCTGCGTCCTGGGAA
EST: gi|211227812|gb|FL170955.1|FL170955
EST:     CAAGCAACGAGAACGCTATGCAACTTGGTGGATATCCTATTTAACAGGAG                         AAATCAGGATGATGCACCAGAAAACAACCCTAGACGCCTGCGTCCTGGGAA
genomic: CAAGCAACGAGAACGCTATGCAACTTGGTGGATATCCTATTTAACAGGAGgtgagcttta ... acattcacagAAATCAGGATGATGCACCAGAAAACAACCCTAGACGCCTGCGTCCTGGGAA
EST: gi|211227811|gb|FL170954.1|FL170954
EST:     CAAGCAACGAGAACGCTATGCAACTTGGTGGATATCCTATTTAACAGGAG                         AAATCAGGATGATGCACCAGAAAACAACCCTAGACGCCTGCGTCCTGGGAA
genomic: CAAGCAACGAGAACGCTATGCAACTTGGTGGATATCCTATTTAACAGGAGgtgagcttta ... acattcacagAAATCAGGATGATGCACCAGAAAACAACCCTAGACGCCTGCGTCCTGGGAA
EST: gi|71436246|gb|DR817296.1|DR817296
EST:     CAAGCAACGAGAACGCTATGCAACTTGGTGGATATCCTATTTAACAGGAG                         AAATCAGGATGATGCACCAGAAAACAACCCTAGACGCCTGCGTCCTGGGAA
genomic: CAAGCAACGAGAACGCTATGCAACTTGGTGGATATCCTATTTAACAGGAGgtgagcttta ... acattcacagAAATCAGGATGATGCACCAGAAAACAACCCTAGACGCCTGCGTCCTGGGAA
EST: gi|148995508|gb|EE034697.2|EE034697
EST:     CAAGCAACGAGAACGCTATGCAACTTGGTGGATATCCTATTTAACAGGAG                         AAATCAGGATGATGCACCAGAAAACAACCCTAGACGCCTGCGTCCTGGGAA
genomic: CAAGCAACGAGAACGCTATGCAACTTGGTGGATATCCTATTTAACAGGAGgtgagcttta ... acattcacagAAATCAGGATGATGCACCAGAAAACAACCCTAGACGCCTGCGTCCTGGGAA
EST: gi|78082005|gb|DV510417.1|DV510417
EST:     CAAGCAACGAGAACGCTATGCAACTTGGTGGATATCCTATTTAACAGGAG                         AAATCAGGATGATGCACCAGAAAACAACCCTAGACGCCTGCGTCCTGGGAA
genomic: CAAGCAACGAGAACGCTATGCAACTTGGTGGATATCCTATTTAACAGGAGgtgagcttta ... acattcacagAAATCAGGATGATGCACCAGAAAACAACCCTAGACGCCTGCGTCCTGGGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgactgcacatgtgggtctacaattaaatgcattattgtgacataacattcacagAAATCAGGATGATGCACCAGAAAACAACCCTAGACGCCTGCGTCCTGGGAAAGTATCTCCACGCCTTAGTGTTCCCAATCATATACAACGGCCTCCATAT
                                        acataac  putative branch site (score: 3)
                     aattaaatgcattatt  TA-rich tract