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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aggaaccttctccactattcccaacattgtagagcattactctgttttatcatttcttacgttgttaacatttcataacaatattatcatctttttgcagGTACCTTTATGACATTCTGACAAAGGCAACTGTAGTGAAGAAAAAGGTCCCTGTGCTTATATTCTGCAACAAGACAGATAAAGTTACCGCCCACTCGAAG

Basic information

species Zea mays
transcript GRMZM2G091503_T04
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G091503_T04 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os08g41250.2 (Oryza sativa), 3'ss of exon 4
aggaaccttctccactattcccaa--cattgtagagcattac----tctgttttatcatttcttacgttgttaacatttcataacaatattatcatctttttgcagGTACCTTTATGACATTCTGACAAAGGCAACTGTAGTGAAGAAAAAGGTCCCTGTGCTTATATTCTGCAACAAGACAGATAAAGTTACCGCCCACTCGAAG
      |         || || |    | |   ||| | ||     | || | | |||    ||  ||||       |        | | |||  |||||  |||||||| | |||||||| |||||||||||||||||||||||||| | ||| ||||| || ||||||||||||||||||||||||||||| || ||||| || 
-----tccgtcttgtcatgccgagacaaatacggagtaataaattgtgtgctgtgtcagccttt-tgttgcagttgctatggtcttacaatattctctttccgcagGTACTTGTATGACATCCTGACAAAGGCAACTGTAGTGAAGAAGAGGGTTCCTGTTCTGATATTCTGCAACAAGACAGATAAAGTTACAGCTCACTCAAAA

upper sequence: GRMZM2G091503_T04 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os06g27870.1 (Oryza sativa), 3'ss of exon 3
---aggaaccttctccactattcccaacattgtagagcattactctgttttatcatttcttacgttgttaacatt-tcataacaatattatcatctttttgcagGTACCTTTATGACATTCTGACAAAGGCAACTGTAGTGAAGAAAAAGGTCCCTGTGCTTATATTCTGCAACAAGACAGATAAAGTTACCGCCCACTCGAAG
     | |||||||     || ||       |||    |||  | |||| | ||| ||  |  ||||  |    | |  |  |||  ||||   ||| |  ||||||||| ||||||||||||||||||||||||||||||||||| | | | | ||| || |||||||||||||| |||||||||||||| || ||||| || 
gactaggaccttcttt--catgccaggacaagtattaaattg-tgtgttgtgtcaatttat-tgttgcaattggtattgtctcaaatttattcccttatcacagGTACCTGTATGACATTCTGACAAAGGCAACTGTAGTGAAGAAGAGGATTCATGTTCTGATATTCTGCAACAAAACAGATAAAGTTACGGCTCACTCAAAA
















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|211478433|gb|FL475431.1|FL475431
EST:     TTTGTTGTTGATGCTCAAGATTTCTTGTCTAGCATGCAAGCTGCTGCAGA                         GTACCTTTATGACATTCTGACAAAGGCAACTGTAGTGAAGAAAAAGGTCCC
genomic: TTTGTTGTTGATGCTCAAGATTTCTTGTCTAGCATGCAAGCTGCTGCAGAgtaaattttg ... ctttttgcagGTACCTTTATGACATTCTGACAAAGGCAACTGTAGTGAAGAAAAAGGTCCC
EST: gi|211020826|gb|FL435096.1|FL435096
EST:     TTTGTTGTTGATGCTCAAGATTTCTTGTCTAGCATGCAAGCTGCTGCAGA                         GTACCTTTATGACATTCTGACAAAGGCAACTGTAGTGAAGAAAAAGGTCCC
genomic: TTTGTTGTTGATGCTCAAGATTTCTTGTCTAGCATGCAAGCTGCTGCAGAgtaaattttg ... ctttttgcagGTACCTTTATGACATTCTGACAAAGGCAACTGTAGTGAAGAAAAAGGTCCC
EST: gi|26557561|gb|CA829796.1|CA829796
EST:     TTTGTTGTTGATGCTCAAGATTTCTTGTTTAGCATGCAAGCTGCTGCAGA                         GTCCCTTTATGACATTCTGACAAAGGCAACTGTAGTGAAGAAAAAGGTCCC
genomic: TTTGTTGTTGATGCTCAAGATTTCTTGTCTAGCATGCAAGCTGCTGCAGAgtaaattttg ... ctttttgcagGTACCTTTATGACATTCTGACAAAGGCAACTGTAGTGAAGAAAAAGGTCCC
EST: gi|193503546|gb|AM937735.1|AM937735
EST:     TTTGTTGTTGATGCTCAAGATTTCTTGTCTAGCATGCAAGCTGCTGCAGA                         GTACCTTTATGACATTCTGACAAAGGCAACTGTAGTGAAGAAAAAGGTCCC
genomic: TTTGTTGTTGATGCTCAAGATTTCTTGTCTAGCATGCAAGCTGCTGCAGAgtaaattttg ... ctttttgcagGTACCTTTATGACATTCTGACAAAGGCAACTGTAGTGAAGAAAAAGGTCCC
EST: gi|113702875|gb|EE680379.1|EE680379
EST:     TTTGTTGTTGATGCTCAAGATTTCTTGTCTAGCATGCAAGCTGCTGCAGA                         GTACCTTTATGACATTCTGACAAAGGCAACTGTAGTGAAGAAAAAGGTCCC
genomic: TTTGTTGTTGATGCTCAAGATTTCTTGTCTAGCATGCAAGCTGCTGCAGAgtaaattttg ... ctttttgcagGTACCTTTATGACATTCTGACAAAGGCAACTGTAGTGAAGAAAAAGGTCCC
EST: gi|78544806|gb|DV622304.1|DV622304
EST:     TTTGTTGTTGATGCTCAAGATTTCTTGTCTAGCATGCAAGCTGCTGCAGA                         GTACCTTTATGACATTCTGACAAAGGCAACTGTAGTGAAGAAAAAGGTCCC
genomic: TTTGTTGTTGATGCTCAAGATTTCTTGTCTAGCATGCAAGCTGCTGCAGAgtaaattttg ... ctttttgcagGTACCTTTATGACATTCTGACAAAGGCAACTGTAGTGAAGAAAAAGGTCCC
EST: gi|60399201|gb|DN232015.1|DN232015
EST:     TTTGTTGTTGATGCTCAAGATTTCTTGTCTAGCATGCAAGCTGCTGCAGA                         GTACCTTTATGACATTCTGACAAAGGCAACTGTAGTGAAGAAAAAGGTCCC
genomic: TTTGTTGTTGATGCTCAAGATTTCTTGTCTAGCATGCAAGCTGCTGCAGAgtaaattttg ... ctttttgcagGTACCTTTATGACATTCTGACAAAGGCAACTGTAGTGAAGAAAAAGGTCCC
EST: gi|211433350|gb|FL131195.1|FL131195
EST:     TTTGTTGTTGATGCTCAAGATTTCTTGTCTAGCATGCAAGCTGCTGCAGA                         GTACCTTTATGACATTCTGACAAAGGCAACTGTAGTGAAGAAAA
genomic: TTTGTTGTTGATGCTCAAGATTTCTTGTCTAGCATGCAAGCTGCTGCAGAgtaaattttg ... ctttttgcagGTACCTTTATGACATTCTGACAAAGGCAACTGTAGTGAAGAAAA
EST: gi|26557413|gb|CA829648.1|CA829648
EST:     TTTGTTGTTGATGCTCAAGATTTCTTGTCTAGCATGCAAGCTGCTGCAGA                         GTACCTTTATGACATTCTGACAAAGGCAACTGTAGTGAAGAAAAAGGTCCC
genomic: TTTGTTGTTGATGCTCAAGATTTCTTGTCTAGCATGCAAGCTGCTGCAGAgtaaattttg ... ctttttgcagGTACCTTTATGACATTCTGACAAAGGCAACTGTAGTGAAGAAAAAGGTCCC
EST: gi|60339827|gb|DN206800.1|DN206800
EST:     TTTGTTGTTGATGCTCAAGATTTCTTGTCTAGCATGCAAGCTGCTGCAGA                         GTACCTTTATGACATTCTGACAAAGGCAACTGTAGTGAAGAAAAAGGTCCC
genomic: TTTGTTGTTGATGCTCAAGATTTCTTGTCTAGCATGCAAGCTGCTGCAGAgtaaattttg ... ctttttgcagGTACCTTTATGACATTCTGACAAAGGCAACTGTAGTGAAGAAAAAGGTCCC
EST: gi|60346742|gb|DN213715.1|DN213715
EST:     TTTGTTGTTGATGCTCAAGATTTCTTGTCTAGCATGCAAGCTGCTGCAGA                         GTACCTTTATGACATTCTGACAAAGGCAACTGTAGTGAAGAAAAAGGTCCC
genomic: TTTGTTGTTGATGCTCAAGATTTCTTGTCTAGCATGCAAGCTGCTGCAGAgtaaattttg ... ctttttgcagGTACCTTTATGACATTCTGACAAAGGCAACTGTAGTGAAGAAAAAGGTCCC
EST: gi|21809709|gb|BQ668027.1|BQ668027
EST:     GCTGCTGCAGA                         GTACCTTTATGACATTCTGACAAAGGCAACTGTAGTGAAGAAAAAGGTCCC
genomic: GCTGCTGCAGAgtaaattttg ... ctttttgcagGTACCTTTATGACATTCTGACAAAGGCAACTGTAGTGAAGAAAAAGGTCCC
EST: gi|89106845|gb|DY577062.1|DY577062
EST:     TTTGTTGTTGATGCTCAAGATTTCTTGTCTAGCATGCAAGCTGCTGCAGA                         GTACCTTTATGACATTCTGACAAAGGCAACTGTAGTGAAGAAAAAGGTCCC
genomic: TTTGTTGTTGATGCTCAAGATTTCTTGTCTAGCATGCAAGCTGCTGCAGAgtaaattttg ... ctttttgcagGTACCTTTATGACATTCTGACAAAGGCAACTGTAGTGAAGAAAAAGGTCCC
EST: gi|22935960|gb|BU572235.1|BU572235
EST:     TTTGTTGTTGATGCTCAAGATTTCTTGTCTAGCATGCAAGCTGCTGCAGA                         GTACCTTTATGACATTCTGACAAAGGCAACTGTAGTGAAGAAAAAGGTCCC
genomic: TTTGTTGTTGATGCTCAAGATTTCTTGTCTAGCATGCAAGCTGCTGCAGAgtaaattttg ... ctttttgcagGTACCTTTATGACATTCTGACAAAGGCAACTGTAGTGAAGAAAAAGGTCCC
EST: gi|60344808|gb|DN211781.1|DN211781
EST:     TTTGTTGTTGATGCTCAAGATTTCTTGTCTAGCATGCAAGCTGCTGCAGA                         GTACCTTTATGACATTCTGACAAAGGCAACTGTAGTGAAGAAAAAGGTCCC
genomic: TTTGTTGTTGATGCTCAAGATTTCTTGTCTAGCATGCAAGCTGCTGCAGAgtaaattttg ... ctttttgcagGTACCTTTATGACATTCTGACAAAGGCAACTGTAGTGAAGAAAAAGGTCCC
EST: gi|22818765|gb|BU498855.1|BU498855
EST:     TTTGTTGTTGATGCTCAAGATTTCTTGTCTAGCATGCAAGCTGCTGCAGA                         GTACCTTTATGACATTCTGACAAAGGCAACTGTAGTGAAGAAAAA
genomic: TTTGTTGTTGATGCTCAAGATTTCTTGTCTAGCATGCAAGCTGCTGCAGAgtaaattttg ... ctttttgcagGTACCTTTATGACATTCTGACAAAGGCAACTGTAGTGAAGAAAAA
EST: gi|22520628|gb|BU079439.1|BU079439
EST:     TTTGTTGTTGATGCTCAAGATTTCTTGTCTAGCATGCAAGCTGCTGCAGA                         GTACCTTTATGACATTCTGACAAAGGCAACTGTAGTGAAGAAAAAGGTCCC
genomic: TTTGTTGTTGATGCTCAAGATTTCTTGTCTAGCATGCAAGCTGCTGCAGAgtaaattttg ... ctttttgcagGTACCTTTATGACATTCTGACAAAGGCAACTGTAGTGAAGAAAAAGGTCCC
EST: gi|23357586|gb|BU645235.1|BU645235
EST:     GATTTCTTGTCTAGCATGCAAGCTGCTGCAGA                         GTACCTTTATGACATTCTGACAAAGGCAACTGTAGTGAAGAAAAAGGTCCC
genomic: GATTTCTTGTCTAGCATGCAAGCTGCTGCAGAgtaaattttg ... ctttttgcagGTACCTTTATGACATTCTGACAAAGGCAACTGTAGTGAAGAAAAAGGTCCC
EST: gi|60340296|gb|DN207269.1|DN207269
EST:     TTTGTTGTTGATGCTCAAGATTTCTTGTCTAGCATGCAAGCTGCTGCAGA                         GTACCTTTATGACATTCTGACAAAGGCAACTGTAGTGAAGAAAAAGGTCCC
genomic: TTTGTTGTTGATGCTCAAGATTTCTTGTCTAGCATGCAAGCTGCTGCAGAgtaaattttg ... ctttttgcagGTACCTTTATGACATTCTGACAAAGGCAACTGTAGTGAAGAAAAAGGTCCC
EST: gi|26559949|gb|CA832184.1|CA832184
EST:     TTTGTTGTTGATGCTCAAGATTTCTTGTCTAGCATGCAAGCTGCTGCAGA                         GTACCTTTATGACATTCTGACAAAGGCAACTGTAGTGAAGA
genomic: TTTGTTGTTGATGCTCAAGATTTCTTGTCTAGCATGCAAGCTGCTGCAGAgtaaattttg ... ctttttgcagGTACCTTTATGACATTCTGACAAAGGCAACTGTAGTGAAGA
EST: gi|193502482|gb|AM937804.1|AM937804
EST:     TTTGTTGTTGATGCTCAAGATTTCTTGTCTAGCATGCAAGCTGCTGAAGA                         GTACCTTTATGACATTCTGACAAAGGCAACTGTAGTGAAGAAAAAGGTCCC
genomic: TTTGTTGTTGATGCTCAAGATTTCTTGTCTAGCATGCAAGCTGCTGCAGAgtaaattttg ... ctttttgcagGTACCTTTATGACATTCTGACAAAGGCAACTGTAGTGAAGAAAAAGGTCCC
EST: gi|22520627|gb|BU079438.1|BU079438
EST:     TTTGTTGTTGATGCTCAAGATTTCTTGTCTAGCATGCAAGCTGCTGCAGA                         GTACCTTTATGACATTCTGACAAAGGCAACTGTAGTGAAGAAAAAGGTCCC
genomic: TTTGTTGTTGATGCTCAAGATTTCTTGTCTAGCATGCAAGCTGCTGCAGAgtaaattttg ... ctttttgcagGTACCTTTATGACATTCTGACAAAGGCAACTGTAGTGAAGAAAAAGGTCCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttatcatttcttacgttgttaacatttcataacaatattatcatctttttgcagGTACCTTTATGACATTCTGACAAAGGCAACTGTAGTGAAGAAAAAGGTCCCTGTGCTTATATTCTGCAACAAGACAGATAAAGTTACCGCCCACTCGAAG
                           tcataac  putative branch site (score: 2)
                                         tcatcttttt  putative PPT
                        atttcataacaatatt  TA-rich tract