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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tattgttctcagcaacgcatctctgtaccttagttttgctccctaagccgacactgttttacctgttaagttcatatgctgacttattccttccttgtagGTAATGCAAAGTCTTGCAAAATCCATAGCATGGGATGGTGAGGGTGCAACATGCCTAATTGAG

Basic information

species Zea mays
transcript GRMZM2G044237_T04
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G044237_T03 (Zea mays), 3'ss of exon 11
lower sequence: LOC_Os03g17120.1 (Oryza sativa), 3'ss of exon 11
------tattgttctcagcaacgcatctctgtaccttagttttgctccctaagccgacactgttttacctgttaagttcat--atgctgacttattccttccttgtagGTAATGCAAAGTCTTGCAAAATCCATAGCATGGGATGGTGAGGGTGCAACATGCCTAATTGAG
      | || ||||  |   |  |  | | |    || ||||  |  |  |||  ||     | ||||| | |||   |   |||||||| ||||  |  | |||||||||||||| ||||||||||||||||||||||||||||||||||||||||||| |||||||||
atcttattttcttcttggttgcagagtttt-tgatgtatttttatttac--agcaaac-----tgtacctataaaggaaaaagatgctgacctatttatctcctgtagGTAATGCAAGGTCTTGCAAAATCCATAGCATGGGATGGTGAGGGTGCAACATGTCTAATTGAG

upper sequence: GRMZM2G044237_T03 (Zea mays), 3'ss of exon 11
lower sequence: GLYMA13G19450.1 (Glycine max), 3'ss of exon 12
--tattgttctcagcaacgcatctctgtaccttagttttgctccctaagccgacactgttttacctgttaagttcatatgctgacttattccttccttgtagGTAATGCAAAGTCTTGCAAAATCCATAGCATGGGATGGTGAGGGTGCAACATGCCTAATTGAG
   ||  ||     |||| |  ||    |  | ||  |   |   |    | | | ||      | |  ||  | |  |  ||| ||  |  ||| ||  ||||||||||| ||||||| ||||| ||||| |||||||| || || |||||||||||  |||||
gtcatcctttattccaac-ctccttcagatgtaagcataatttattct-tcaaaagtgcccagtcagaaaatgtgaagttttgagttgattgttctttccagGTAATGCAAGGTCTTGCCAAATCAATAGCTTGGGATGGGGAAGGAGCAACATGCCTCGTTGAG

upper sequence: GRMZM2G044237_T03 (Zea mays), 3'ss of exon 11
lower sequence: GLYMA10G05090.1 (Glycine max), 3'ss of exon 11
------tattgttctcagcaacgcatctctgtaccttagttttgctccctaagccgacactgttttacctgttaagttcatatgctgacttattccttccttgtagGTAATGCAAAGTCTTGCAAAATCCATAGCATGGGATGGTGAGGGTGCAACATGCCTAATTGAG
       ||  |  ||        | |||   || |    |||  ||   ||      | ||  |   | |  ||  | |  |  ||| ||  |  ||| ||  ||||||||||| ||||||| ||||| ||||| |||||||| || ||||||||||||||  |||||
cctttagatcttcttccatggt-tacctcgagacatgtaatttattcttcaaa-----agtgcctggtcagaaaatgtgaagttttgagttgattgttctttccagGTAATGCAAGGTCTTGCCAAATCAATAGCTTGGGATGGAGAAGGTGCAACATGCCTCGTTGAG

upper sequence: GRMZM2G044237_T03 (Zea mays), 3'ss of exon 11
lower sequence: Vv08s0040g03320.t01 (Vitis vinifera), 3'ss of exon 12
tattgttctcagcaacgcatctctgtaccttagttttgctccctaagccgacactgttttacctgttaagttcatatgctgacttattccttccttgtagGTAATGCAAAGTCTTGCAAAATCCATAGCATGGGATGGTGAGGGTGCAACATGCCTAATTGAG
 | |    |     | |    |  |   |||   |||   |  | |       |  ||    |   |  | |||  |  | ||  ||  | |  ||  ||||||||||  ||||||||||||| |||||||||||||| || || ||||||||||||||||||
aagtcagttggctcatgaggtttagaggcttgaatttctactattatggacagcctttgggtccaatctggtcagttcttaacaaatgtccttttttcagGTAATGCAGGGTCTTGCAAAATCAATAGCATGGGATGGAGAAGGAGCAACATGCCTAATTGAG

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|32934567|gb|CF039379.1|CF039379
EST:     AAAGTCTTGATAGCATTGAGGCTCAACAGTTCCAAGCATGCCTAGATGCA                         GTAATGCAAAGTCTTGCAAAATCCATAGCATGGGATGGTGAGGGTGCAACA
genomic: AAAGTCTTGATAGCATTGAGGCTCAACAGTTCCAAGCATGCCTAGATGCAgtaagtatta ... ttccttgtagGTAATGCAAAGTCTTGCAAAATCCATAGCATGGGATGGTGAGGGTGCAACA
EST: gi|32835096|gb|CD974774.1|CD974774
EST:     AAAGTCTTGATAGCATTGAGGCTCAACAGTTCCAAGCATGCCTAGATGCA                         GTAATGCAAAGTCTTGCAAAATCCATAGCATGGGATGGTGAGGGTGCAACA
genomic: AAAGTCTTGATAGCATTGAGGCTCAACAGTTCCAAGCATGCCTAGATGCAgtaagtatta ... ttccttgtagGTAATGCAAAGTCTTGCAAAATCCATAGCATGGGATGGTGAGGGTGCAACA
EST: gi|78092274|gb|DV520648.1|DV520648
EST:     AAAGTCTTGATAGCATTGAGGCTCAACAGTCCCAAGCATGCCTAGATGCA                         GTAATGCAAAGTCTTGCAAAATCCATAGCATGGGATGGTGAGGGTGCAACA
genomic: AAAGTCTTGATAGCATTGAGGCTCAACAGTTCCAAGCATGCCTAGATGCAgtaagtatta ... ttccttgtagGTAATGCAAAGTCTTGCAAAATCCATAGCATGGGATGGTGAGGGTGCAACA
EST: gi|148938789|gb|EC883127.2|EC883127
EST:     AAAGTCTTGATAGCATTGAGGCTCAACAGTTCCAAGCATGCCTAGATGCA                         GTAATGCAAAGTCTTGCAAAATCCATAGCATGGGATGGTGAGGGTGCAACA
genomic: AAAGTCTTGATAGCATTGAGGCTCAACAGTTCCAAGCATGCCTAGATGCAgtaagtatta ... ttccttgtagGTAATGCAAAGTCTTGCAAAATCCATAGCATGGGATGGTGAGGGTGCAACA
EST: gi|32928445|gb|CF033257.1|CF033257
EST:     AAAGTCTTGATAGCATTGAGGCTCAACAGTTCCAAGCATGCCTAGATGCA                         GTAATGCAAAGTCTTGCAAAATCCATAGCATGGGATGGTGAGGGTGCAACA
genomic: AAAGTCTTGATAGCATTGAGGCTCAACAGTTCCAAGCATGCCTAGATGCAgtaagtatta ... ttccttgtagGTAATGCAAAGTCTTGCAAAATCCATAGCATGGGATGGTGAGGGTGCAACA
EST: gi|76917242|gb|DV166726.1|DV166726
EST:     AAAGTCTTGATAGCATTGAGGCTCAACAGTTCCAAGCATGCCTAGATGCA                         GTAATGCAAAGTCTTGCAAAATCCATAGCATGGGATGGTGAGGGTGCAACA
genomic: AAAGTCTTGATAGCATTGAGGCTCAACAGTTCCAAGCATGCCTAGATGCAgtaagtatta ... ttccttgtagGTAATGCAAAGTCTTGCAAAATCCATAGCATGGGATGGTGAGGGTGCAACA
EST: gi|211349360|gb|FL434476.1|FL434476
EST:     AAAGTCTTGATAGCATTGAGGCTCAACAGTTCCAAGCATGCCTAGATGCA                         GTAATGCAAAGTCTTGCAAAATCCATAGCATGGGATGGTGAGGGTGCAACA
genomic: AAAGTCTTGATAGCATTGAGGCTCAACAGTTCCAAGCATGCCTAGATGCAgtaagtatta ... ttccttgtagGTAATGCAAAGTCTTGCAAAATCCATAGCATGGGATGGTGAGGGTGCAACA
EST: gi|32833027|gb|CD972705.1|CD972705
EST:     AAAGTCTTGATAGCATTGAGGCTCAACAGTTCCAAGCATGCCTAGATGCA                         GTAATGCAAAGTCTTGCAAAATCCATAGCATGGGATGGTGAGGGTGCAACA
genomic: AAAGTCTTGATAGCATTGAGGCTCAACAGTTCCAAGCATGCCTAGATGCAgtaagtatta ... ttccttgtagGTAATGCAAAGTCTTGCAAAATCCATAGCATGGGATGGTGAGGGTGCAACA
EST: gi|78027443|gb|DV495830.1|DV495830
EST:     ATAGCATTGAGGCTCAACAGTTCCAAGCATGCCTAGATGCA                         GTAATGCAAAGTCTTGCAAAATCCATAGCATGGGATGGTGAGGGTGCAACA
genomic: ATAGCATTGAGGCTCAACAGTTCCAAGCATGCCTAGATGCAgtaagtatta ... ttccttgtagGTAATGCAAAGTCTTGCAAAATCCATAGCATGGGATGGTGAGGGTGCAACA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agccgacactgttttacctgttaagttcatatgctgacttattccttccttgtagGTAATGCAAAGTCTTGCAAAATCCATAGCATGGGATGGTGAGGGTGCAACATGCCTAATTGAG
                               tgctgac  putative branch site (score: 2)
                                     cttattccttccttgt  CT-rich tract
         tgtttta  TA-rich tract