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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tacacatagaaaattatctagcgtttgtgcacctagattgatctgttctgacagcatctgttctcatttctagcatctgttctcatttcttgccttgcagGTTTGCTGGGCAGCAAATCCATGCGAGTGAAGATGATGGTTCTGTTAACCATACTCTTATCCGTGATTACGATGCAGAGGTGTCAAGACTGGACCGATTT

Basic information

species Zea mays
transcript GRMZM2G074351_T01
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G074351_T02 (Zea mays), 3'ss of exon 11
lower sequence: LOC_Os04g41910.1 (Oryza sativa), 3'ss of exon 12
tacacatagaaaattatctagc--gtttgtgcacctagattgatctgttctgacagcatctgttctcatttctagcatctgttctc-atttcttgccttgcagGTTTGCTGGGCAGCAAATCCATGCGAGTGAAGATGATGGTTCTGTTAACCATACTCTTATCCGTGATTACGATGCAGAGGTGTCAAGACTGGACCGATTT
|     | | || |   |  ||  | || |  |||||  | ||    ||   |     |   |  |   || || ||  ||||||  |||| || | | ||||||||| |||| | |||||||| |||||||||||||| |||||| | |||||| |||| ||||||||||| ||||||||||||||||| || || ||||||
tgggtgttggaattgtgcatgcttgcttttcaaccta--tcgaagaattagaatt-tgtggatcattcgttttatcaattgttcttgatttgttccttcgcagGTTTGGTGGGAATCAAATCCAGGCGAGTGAAGATGACGGTTCTATCAACCATGCTCTGATCCGTGATTATGATGCAGAGGTGTCAAGGCTTGATCGATTT

upper sequence: GRMZM2G074351_T02 (Zea mays), 3'ss of exon 11
lower sequence: GLYMA10G31450.1 (Glycine max), 3'ss of exon 14
tacacatagaaaattatctagcgtttgtgcacctagattgatctgttctgacagcatctgt-tctcatttctagcatctgttctcatttcttgccttg-cagGTTTGCTGGGCAGCAAATCCATGCGAGTGAAGATGATGGTTCTGTTAACCATACTCTTATCCGTGATTACGATGCAGAGGTGTCAAGACTGGACCGATTT
    ||       ||  ||    |||   |   || |||    | | |      | | ||| | | |  ||||||   | || || |   ||   ||  |||||||| |||    || || ||||| ||||||||||||||||| ||||||||| |  |  |||| |||   || | ||| |      | ||||| |  |||
--tgcagttgcttttgccttttcttttctcctttatattttcatttacctttttcctttgtatatgaactctagccatttttttcctcatttattttatcagGTTTGGTGGTAGACAGATACATGCCAGTGAAGATGATGGTTCAGTTAACCATGCCTTAGTCCGGGATCTGGAAGAAGATGCCATTCGGCTGGAGCAGTTT

upper sequence: GRMZM2G074351_T02 (Zea mays), 3'ss of exon 11
lower sequence: GLYMA20G36110.1 (Glycine max), 3'ss of exon 13
tacacatagaaaattatctagcgtttgtgcacctagattgatctgttctgacagcatctgttctcatttctagcatctgttctcatttcttgccttg-cagGTTTGCTGGGCAGCAAATCCATGCGAGTGAAGATGATGGTTCTGTTAACCATACTCTTATCCGTGATTACGATGCAGAGGTGTCAAGACTGGACCGATTT
|  || |      || ||     ||| | ||  |  ||     | | |      | |    | |||  ||||||   | || || |   ||   ||  |||||||| |||    || || ||||| ||||||||||||||||| ||||||||| |  |  |||| |||   || | ||| ||     | ||||| |  |||
tttaccttttcttttctcctttatttct-catttgtatcttcatttaccttttcctttgtatatcaactctagccattcttttcctcatttattttatcagGTTTGGTGGTAGACAGATACATGCCAGTGAAGATGATGGTTCGGTTAACCATGCCTTAGTCCGGGATCTGGAAGAAGATGTCATTCGGCTGGAGCAGTTT

upper sequence: GRMZM2G074351_T02 (Zea mays), 3'ss of exon 11
lower sequence: Vv00s0220g00010.t01 (Vitis vinifera), 3'ss of exon 9
tacacatagaaaattatctagcgtttgtgcacctagatt--gatctgttctgacagcatc----tgttctcatttctagcatctgttctcatttcttgccttgcagGTTTGCTGGGCAGCAAATCCATGCGAGTGAAGATGATGGTTCTGTTAACCATACTCTTATCCGTGATTACGATGCAGAGGTGTCAAGACTGGACCGATTT
        |     | | ||  |    ||  | | | ||  | |  |||    ||| |||    |  | |  ||  | | |     ||| |||  || |  | |||||||| |||   ||| || ||||| |||||||||||||||||||| |||||| |  |  | || |||   || ||||| |    | | |||||   ||||
------agggtttctgtttaatgagcatgagcatggtttttggttcgttgaaccaggatcctaatcatttgcttaattgtaatgaatctgattgtttccaattcagGTTTGGTGGAAGGCAGATACATGCCAGTGAAGATGATGGTTCTGTCAACCATGCCTTGGTGCGGGATCTGGACGCAGATGCTGAACGGCTGGAGGCATTT

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|71322081|gb|DR797734.1|DR797734
EST:     AAAGATAGAAAAGATGGTGCCAAATGCATAGAGAAGATGAACGGTAGATG                         GTTTGCTGGGCAGCAAATCCATGCGAGTGAAGATGATGGTTCTGTTAACCA
genomic: AAAGATAGAAAAGATGGTGCCAAATGCATAGAGAAGATGAACGGTAGATGgtgagtcaac ... tgccttgcagGTTTGCTGGGCAGCAAATCCATGCGAGTGAAGATGATGGTTCTGTTAACCA
EST: gi|211121225|gb|FL444926.1|FL444926
EST:     AAAGATAGAAAAGATGGTGCCAAATGCATAGAGAAGATGAATGGTAGATG                         GTTCGCTGGGCAGCAAATCCATGCGAGTGAAGATGATGGTTCTGTTAACCA
genomic: AAAGATAGAAAAGATGGTGCCAAATGCATAGAGAAGATGAACGGTAGATGgtgagtcaac ... tgccttgcagGTTTGCTGGGCAGCAAATCCATGCGAGTGAAGATGATGGTTCTGTTAACCA
EST: gi|60339717|gb|DN206690.1|DN206690
EST:     AAAGATAGAAAAGATGGTGCCAAATGCATAGAGAAGATGAATGGTAGATG                         GTTCGCTGGGCAGCAAATCCATGCGAGTGAAGATGATGGTTCTGTTAACCA
genomic: AAAGATAGAAAAGATGGTGCCAAATGCATAGAGAAGATGAACGGTAGATGgtgagtcaac ... tgccttgcagGTTTGCTGGGCAGCAAATCCATGCGAGTGAAGATGATGGTTCTGTTAACCA
EST: gi|93283666|gb|EB675930.1|EB675930
EST:     AAAGATAGAAAAGATGGTGCCAAATGCATAGAGAAGATGAACGGTAGATG                         GTTTGCTGGGCAGCAAATCCATGCGAGTGAAGATGATGGTTCTGTTAACCA
genomic: AAAGATAGAAAAGATGGTGCCAAATGCATAGAGAAGATGAACGGTAGATGgtgagtcaac ... tgccttgcagGTTTGCTGGGCAGCAAATCCATGCGAGTGAAGATGATGGTTCTGTTAACCA
EST: gi|32837936|gb|CD977614.1|CD977614
EST:     AAAGATAGAAAAGATGGTGCCAAATGCATAGAGAAGATGAATGGTAGATG                         GTTCGCTGGGCAGCAAATCCATGCGAGTGAAGATGATGGTTCTGTTAACCA
genomic: AAAGATAGAAAAGATGGTGCCAAATGCATAGAGAAGATGAACGGTAGATGgtgagtcaac ... tgccttgcagGTTTGCTGGGCAGCAAATCCATGCGAGTGAAGATGATGGTTCTGTTAACCA
EST: gi|211013609|gb|FL363381.1|FL363381
EST:     AAAGA-A-AAAT-ATGGTGCCAAATGCATAGAGAAGATGAATGGTAGATG                         GTTCGCTGGGCAGCAAATCCATGCGAGTGAAGATGATGGTTCTGTTAACCA
genomic: AAAGATAGAAAAGATGGTGCCAAATGCATAGAGAAGATGAACGGTAGATGgtgagtcaac ... tgccttgcagGTTTGCTGGGCAGCAAATCCATGCGAGTGAAGATGATGGTTCTGTTAACCA
EST: gi|211309996|gb|FL325113.1|FL325113
EST:     AAAGATAGAAAAGATGGTGCCAAATGCATAGAGAAGATGAATGGTAGATG                         GTTCGCTGGGCAGCAAATCCATGCGAGTGAAGATGATGGTTCTGTTAACCA
genomic: AAAGATAGAAAAGATGGTGCCAAATGCATAGAGAAGATGAACGGTAGATGgtgagtcaac ... tgccttgcagGTTTGCTGGGCAGCAAATCCATGCGAGTGAAGATGATGGTTCTGTTAACCA
EST: gi|32933834|gb|CF038646.1|CF038646
EST:     AAAGATAGAAAAGATGGTGCCAAATGCATAGAGAAGATGAATGGTAGATG                         GTTCGCTGGGCAGCAAATCCATGCGAGTGAAGATGATGGTTCTGTTAACCA
genomic: AAAGATAGAAAAGATGGTGCCAAATGCATAGAGAAGATGAACGGTAGATGgtgagtcaac ... tgccttgcagGTTTGCTGGGCAGCAAATCCATGCGAGTGAAGATGATGGTTCTGTTAACCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttctgacagcatctgttctcatttctagcatctgttctcatttcttgccttgcagGTTTGCTGGGCAGCAAATCCATGCGAGTGAAGATGATGGTTCTGTTAACCATACTCTTATCCGTGATTACGATGCAGAGGTGTCAAGACTGGACCGATTT
 ttctgac  putative branch site (score: 2)
                              tctgttctcatttctt  putative PPT
                    atttcta  TA-rich tract