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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atgaagggactaaaaattagtccctagaaaccaaacaccccctatatcatactggccacaagttgcgctggtgagctaacatggatttttggcgttctagGTGTTCCGTCTATCCGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTACATCGAGCAATACGAGAAGGATTCCTCCAAGACCGGCAGGGATTCACAGG

Basic information

species Zea mays
transcript GRMZM2G023289_T01
intron # 16
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G023289_T03 (Zea mays), 3'ss of exon 16
lower sequence: LOC_Os03g50480.1 (Oryza sativa), 3'ss of exon 16
----------------------------------------------------------------------atgaagggactaaaaattagtccctagaaaccaaacaccccctatatcatactggccacaagttgcgctggtgagctaac-atggatttttggcgttctagGTGTTCCGTCTATCCGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTACATCGAGCAATACGAGAAGGATTCCTCCAAGACCGGCAGGGATTCACAGG
                                                                      ||||||   | | || || |       ||  |             |   |  ||    |||      ||||||| || || ||   ||  |    |||||||||||||| || || ||||| || ||||||||||| || |||||||||||||||||||| || ||||||||||| |||||||||||||||||||| ||||
gtatggtcccattctgttattgtttgttgaccttataatatccttcattttgtttcttgaaccaaagcaaatgaagtagc-acaatttggcattgcaaattcgggtgtttatcgcagagtg-tgagtgcaacaaatactggtgaactgaccattagttcctcaaattctagGTGTTCCGCCTCTCTGGAACTGGCTCTGTTGGTGCTACTATCCGTGTCTACATCGAGCAGTATGAGAAGGATTCTTCCAAGACCGGCAGGGATTCGCAGG

upper sequence: GRMZM2G023289_T03 (Zea mays), 3'ss of exon 16
lower sequence: Vv01s0011g05370.t01 (Vitis vinifera), 3'ss of exon 17
---atgaagggactaaaaattagtccctagaaaccaaacaccccctatatca-tactggccacaagttgcgctggtgagctaacatggatttttggcgttctagGTGTTCCGTCTATCCGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTACATCGAGCAATACGAGAAGGATTCCTCCAAGACCGGCAGGGATTCACAGG
   |        | || | ||       |||||  |   |  ||  |   || ||||     |    ||   || ||  |     ||||| |      ||| || | ||||| || || ||||| || || |  ||||| |||||||||||||| || ||||| || ||||||||||| || ||||| || |||||||| || |
tatacatcttttccaagacttgcgtttgagaaaatactgagtccaaactccactactaaagtcgttctgtcttgttgtccctcactggatata----attccagATTTTCCGCCTCTCGGGAACTGGCTCAGAAGGTGCAACCATCCGTGTCTATATTGAGCAGTATGAGAAGGATTCGTCAAAGACTGGGAGGGATTCTCAAG
















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|78108858|gb|DV527275.1|DV527275
EST:     TGTCCAAGCACCAGGGCATCCGATACCTCTTCGGAGATGGTTCACGACTG                         GTGTTCCGTCTATCCGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
genomic: TGTCCAAGCACCAGGGCATCCGATACCTCTTCGGAGATGGTTCACGACTGgtatgtagac ... ggcgttctagGTGTTCCGTCTATCCGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
EST: gi|71426274|gb|DR807324.1|DR807324
EST:     TGTCCAAGCACCAGGGCATCCGATACCTCTTCGGAGATGGTTCACGACTG                         GTGTTCCGTCTATCCGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
genomic: TGTCCAAGCACCAGGGCATCCGATACCTCTTCGGAGATGGTTCACGACTGgtatgtagac ... ggcgttctagGTGTTCCGTCTATCCGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
EST: gi|5296174|gb|AI782854.1|AI782854
EST:     TGTCCAAGCACCAGGGCATCCGATACCTCTTCGGAGATGGTTCACGACTG                         GTGTTCCGTCTCTCCGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
genomic: TGTCCAAGCACCAGGGCATCCGATACCTCTTCGGAGATGGTTCACGACTGgtatgtagac ... ggcgttctagGTGTTCCGTCTATCCGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
EST: gi|211541121|gb|FL006422.1|FL006422
EST:     TGTCCAAGCACCAGGGCATCCGATACCTCTTCGGAGATGGTTCACGACTG                         GTGTTCCGTCTATCCGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
genomic: TGTCCAAGCACCAGGGCATCCGATACCTCTTCGGAGATGGTTCACGACTGgtatgtagac ... ggcgttctagGTGTTCCGTCTATCCGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
EST: gi|32906153|gb|CF010966.1|CF010966
EST:     TGTCCAAGCACCAGGGCATCCGATACCTCTTCGGAGATGGTTCACGACTG                         GTGTTCCGTCTCTCCGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
genomic: TGTCCAAGCACCAGGGCATCCGATACCTCTTCGGAGATGGTTCACGACTGgtatgtagac ... ggcgttctagGTGTTCCGTCTATCCGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
EST: gi|5895776|gb|AW037022.1|AW037022
EST:     TGTCCAAGCACCAGGGCATCCGATACCTCTTCGGAGATGGTTCACGACTG                         GTGTTCCGTCTCTCCGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
genomic: TGTCCAAGCACCAGGGCATCCGATACCTCTTCGGAGATGGTTCACGACTGgtatgtagac ... ggcgttctagGTGTTCCGTCTATCCGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
EST: gi|78024768|gb|DV493155.1|DV493155
EST:     TGTCCAAGCACCAGGGCATCCGATACCTCTTCGGAGATGGTTCACGACTG                         GTGTTCCGTCTATCCGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
genomic: TGTCCAAGCACCAGGGCATCCGATACCTCTTCGGAGATGGTTCACGACTGgtatgtagac ... ggcgttctagGTGTTCCGTCTATCCGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
EST: gi|31357336|gb|CD441693.1|CD441693
EST:     TGTCCAAGCACCAGGGCATCCGATACCTCTTCGGAGATGGTTCACGACTG                         GTGTTCCGTCTCTCCGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
genomic: TGTCCAAGCACCAGGGCATCCGATACCTCTTCGGAGATGGTTCACGACTGgtatgtagac ... ggcgttctagGTGTTCCGTCTATCCGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
EST: gi|67020139|gb|CO448888.1|CO448888
EST:     TGTCCAAGCACCAGGGCATCCGATACCTCTTCGGAGATGGTTCACGACTG                         GTGTTCCGTCTATCCGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
genomic: TGTCCAAGCACCAGGGCATCCGATACCTCTTCGGAGATGGTTCACGACTGgtatgtagac ... ggcgttctagGTGTTCCGTCTATCCGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
EST: gi|32850278|gb|CD989959.1|CD989959
EST:     TGTCCAAGCACCAGGGCATCCGATACCTCTTCGGAGATGGTTCACGACTG                         GTGTTCCGTCTCTCCGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
genomic: TGTCCAAGCACCAGGGCATCCGATACCTCTTCGGAGATGGTTCACGACTGgtatgtagac ... ggcgttctagGTGTTCCGTCTATCCGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
EST: gi|32914018|gb|CF018830.1|CF018830
EST:     TGTCCAAGCACCAGGGCATCCGATACCTCTTCGGAGATGGTTCACGACTG                         GTGTTCCGTCTCTCCGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
genomic: TGTCCAAGCACCAGGGCATCCGATACCTCTTCGGAGATGGTTCACGACTGgtatgtagac ... ggcgttctagGTGTTCCGTCTATCCGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
EST: gi|211190026|gb|FL186116.1|FL186116
EST:     TGTCCAAGCACCAGGGCATCCGATACCTCTTCGGAGATGGTTCACGACTG                         GTGTTCCGTCTATCCGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
genomic: TGTCCAAGCACCAGGGCATCCGATACCTCTTCGGAGATGGTTCACGACTGgtatgtagac ... ggcgttctagGTGTTCCGTCTATCCGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
EST: gi|149060808|gb|EE157260.2|EE157260
EST:     TGTCCAAGCACCAGGGCATCCGATACCTCTTCGGAGATGGTTCACGACTG                         GTGTTCCGTCTATCCGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
genomic: TGTCCAAGCACCAGGGCATCCGATACCTCTTCGGAGATGGTTCACGACTGgtatgtagac ... ggcgttctagGTGTTCCGTCTATCCGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
EST: gi|5081034|gb|AI738296.1|AI738296
EST:     TGTCCAAGCACCAGGGCATCCGATACCTCTTCGGAGATGGTTCACGACTG                         GTGTTCCGTCTATCCGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
genomic: TGTCCAAGCACCAGGGCATCCGATACCTCTTCGGAGATGGTTCACGACTGgtatgtagac ... ggcgttctagGTGTTCCGTCTATCCGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
EST: gi|78109659|gb|DV528075.1|DV528075
EST:     TGTCCAAGCACCAGGGCATCCGATACCTCTTCGGAGATGGTTCACGACTG                         GTGTTCCGTCTATCCGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
genomic: TGTCCAAGCACCAGGGCATCCGATACCTCTTCGGAGATGGTTCACGACTGgtatgtagac ... ggcgttctagGTGTTCCGTCTATCCGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
EST: gi|44900765|gb|CK827310.1|CK827310
EST:     TGTCCAAGCACCAGGGCATCCGATACCTCTTCGGAGATGGTTCACGACTG                         GTGTTCCGTCTATCCGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC
genomic: TGTCCAAGCACCAGGGCATCCGATACCTCTTCGGAGATGGTTCACGACTGgtatgtagac ... ggcgttctagGTGTTCCGTCTATCCGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atcatactggccacaagttgcgctggtgagctaacatggatttttggcgttctagGTGTTCCGTCTATCCGGAACCGGTTCTGTTGGTGCCACCATCCGTGTCTACATCGAGCAATACGAGAAGGATTCCTCCAAGACCGGCAGGGATTCACAGG
                            agctaac  putative branch site (score: 2)
                                       attttt  TA-rich tract