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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcagtattgactattgacactctttcccacacccaaaataaatattgtacctgatatgagcttcatttcttctgtagGTGGTTGCCTACGACTTTGGTATCAAGCATAATATTTTGAGACGATTGACATCATATGGATGCAAAATAACAGTTGTTCCAGCAAATTGGCCTGCTTCAG

Basic information

species Zea mays
transcript GRMZM2G029573_T01
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G029573_T01 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os02g47850.3 (Oryza sativa), 3'ss of exon 8
------gtcagtattgactattgacactctttcccacacccaaaataaatattgtacctga-tatgagcttcatttcttctgtagGTGGTTGCCTACGACTTTGGTATCAAGCATAATATTTTGAGACGATTGACATCATATGGATGCAAAATAACAGTTGTTCCAGCAAATTGGCCTGCTTCAG
      ||  || | | |  ||     | |||   ||||   | || ||| |  || || |  || |||||| |||  | |  ||||||| || ||||| ||||| |||||||| |||||||||||||| ||||| |||||||||||||| ||||| ||||||||||| |||||||||||||| |
gtcagtgttggtttggtccctttctcttttttgaaacacttcagatgaatctcatatctaaacattagcttccttttattt--agGTGGTCGCATACGATTTTGGAATCAAGCACAATATTTTGAGACGTTTGACGTCATATGGATGCAAGATAACTGTTGTTCCAGCCAATTGGCCTGCTTCTG

upper sequence: GRMZM2G029573_T01 (Zea mays), 3'ss of exon 8
lower sequence: Vv04s0044g00550.t01 (Vitis vinifera), 3'ss of exon 7
gtcagtattgactattgacactctttcccacacccaaaa--------------taaatattgtacctgata----tgagcttcatttcttct---------gtagGTGGTTGCCTACGACTTTGGTATCAAGCATAATATTTTGAGACGATTGACATCATATGGATGCAAAATAACAGTTGTTCCAGCAAATTGGCCTGCTTCAG
|| ||||||     || | | | | | | |   ||| ||              | ||| |    |  ||||    |  | |  || | | ||         | ||||  | || || || ||||| |||||||||||||| || ||||| ||| |||| ||||| || ||||| |||||||| ||| |||  ||||| |||||||
gttagtattactcgttcaaagtttatgctaataccagaaaattgcttacaatttgaatttcagtctcgataattctttgttctatctatccttgtttggatgaagGTTATCGCATATGATTTTGGGATCAAGCATAATATATTAAGACGTTTGGCATCCTATGGCTGTAAAATCACAGTTGTCCCATCAACATGGCCAGCTTCAG
















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|6445511|gb|AW179429.1|AW179429
EST:     CTGATTCAGAATGGGAGTTTAAGAGGGATCCGTCAAGTGAAACTTTTCAT                         GTGGTTGCCTACGACTTTGGTATCAAGCATAATATTTTGAGACGATTGACA
genomic: CTGATTCAGAATGGGAGTTTAAGAGGGATCCGTCAAGTGAAACTTTTCATgtcagtattg ... tcttctgtagGTGGTTGCCTACGACTTTGGTATCAAGCATAATATTTTGAGACGATTGACA
EST: gi|211289805|gb|FL254555.1|FL254555
EST:     CTGATTCAGAATGGGAGTTTAAGAGGGATCCGTCAAGTGAAACTTTTCAT                         GTGGTTGCCTACGACTTTGGTATCAAGCATAATATTTTGAGACGATTGACA
genomic: CTGATTCAGAATGGGAGTTTAAGAGGGATCCGTCAAGTGAAACTTTTCATgtcagtattg ... tcttctgtagGTGGTTGCCTACGACTTTGGTATCAAGCATAATATTTTGAGACGATTGACA
EST: gi|31355937|gb|CD440294.1|CD440294
EST:     CTGATTCAGAATGGGAGTTTAAGAGGGATCCGTCAAGTGAAACTTTTCAT                         GTGGTTGCCTACGACTTTGGTATCAAGCATAATATTTTGAGACGATTGACA
genomic: CTGATTCAGAATGGGAGTTTAAGAGGGATCCGTCAAGTGAAACTTTTCATgtcagtattg ... tcttctgtagGTGGTTGCCTACGACTTTGGTATCAAGCATAATATTTTGAGACGATTGACA
EST: gi|148969434|gb|EE020234.2|EE020234
EST:     CTGATTCAGAATGGGAGTTTAAGAGGGATCCGTCAAGTGAAACTTTTCAT                         GTGGTTGCCTACGACTTTGGTATCAAGCATAATATTTTGAGACGATTGACA
genomic: CTGATTCAGAATGGGAGTTTAAGAGGGATCCGTCAAGTGAAACTTTTCATgtcagtattg ... tcttctgtagGTGGTTGCCTACGACTTTGGTATCAAGCATAATATTTTGAGACGATTGACA
EST: gi|67018136|gb|CO446885.1|CO446885
EST:     CTGATTCAGAATGGGAGTTTAAGAGGGATCCGTCAAGTGAAACTTTTCAT                         GTGGTTGCCTACGACTTTGGTATCAAGCATAATATTTTGAGACGATTGACA
genomic: CTGATTCAGAATGGGAGTTTAAGAGGGATCCGTCAAGTGAAACTTTTCATgtcagtattg ... tcttctgtagGTGGTTGCCTACGACTTTGGTATCAAGCATAATATTTTGAGACGATTGACA
EST: gi|71764310|gb|DR962247.1|DR962247
EST:     CTGATTCAGAATGGGAGTTTAAGAGGGATCCGTCAAGTGAAACTTTTCAT                         GTGGTTGCCTACGACTTTGGTATCAAGCATAATATTTTGAGACGATTGACA
genomic: CTGATTCAGAATGGGAGTTTAAGAGGGATCCGTCAAGTGAAACTTTTCATgtcagtattg ... tcttctgtagGTGGTTGCCTACGACTTTGGTATCAAGCATAATATTTTGAGACGATTGACA
EST: gi|37401297|gb|CF638011.1|CF638011
EST:     CTGATTCAGAATGGGAGTTTAAGAGGGATCCGTCAAGTGAAACTTTTCAT                         GTGGTTGCCTACGACTTTGGTATCAAGCATAATATTTTGAGACGATTGACA
genomic: CTGATTCAGAATGGGAGTTTAAGAGGGATCCGTCAAGTGAAACTTTTCATgtcagtattg ... tcttctgtagGTGGTTGCCTACGACTTTGGTATCAAGCATAATATTTTGAGACGATTGACA
EST: gi|211287673|gb|FL254551.1|FL254551
EST:     TGATTCAGAATGGGAGTTTAAGAGGGATCCGTCAAGTGGAAACTTTTCAT                         GTGGTTGCCTACGACTTTGGTATCAAGCATAATATTTTGAGACGATTGACA
genomic: TGATTCAGAATGGGAGTTTAAGAGGGATCCGTCAAGTG-AAACTTTTCATgtcagtattg ... tcttctgtagGTGGTTGCCTACGACTTTGGTATCAAGCATAATATTTTGAGACGATTGACA
EST: gi|211287671|gb|FL254549.1|FL254549
EST:     CTGATTCAGAATGGGAGTTTAAGAGGGATCCGTCAAGTGAAACTTTTCAT                         GTGGTTGCCTACGACTTTGGTATCAAGCATAATATTTTGAGACGATTGACA
genomic: CTGATTCAGAATGGGAGTTTAAGAGGGATCCGTCAAGTGAAACTTTTCATgtcagtattg ... tcttctgtagGTGGTTGCCTACGACTTTGGTATCAAGCATAATATTTTGAGACGATTGACA
EST: gi|31356811|gb|CD441168.1|CD441168
EST:     TGATTCAGAATGGGAGTTTAAGAGGGATCCGTCAAGTG-AACTTTTTCAT                         GTGGTTGCCTACGACTTTGGTATCAAGCATAATATTTTGAGACGATTGAC
genomic: TGATTCAGAATGGGAGTTTAAGAGGGATCCGTCAAGTGAAAC-TTTTCATgtcagtattg ... tcttctgtagGTGGTTGCCTACGACTTTGGTATCAAGCATAATATTTTGAGACGATTGAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttcccacacccaaaataaatattgtacctgatatgagcttcatttcttctgtagGTGGTTGCCTACGACTTTGGTATCAAGCATAATATTTTGAGACGATTGACATCATATGGATGCAAAATAACAGTTGTTCCAGCAAATTGGCCTGCTTCAG
                          acctgat  putative branch site (score: 4)
                                      cttcatttcttctgt  putative PPT
            aaaataaatattgta  TA-rich tract