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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatattacctcagttttcacacacacagaattttgtgaatcacacatttgtttgaccatttagttatgtttctgatgcgaacatttactgccctttgcagCCAAGCTTGTCCCAGTTGGATATGGCATCAAGAAGCTGCAAATCATGATGACCATTGTCGATGACCTTGTCTCTGTTGACACTCTCATCGAGGACCATCT

Basic information

species Zea mays
transcript GRMZM2G153569_T02
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G153569_T02 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os07g42300.2 (Oryza sativa), 3'ss of exon 6
gtatattacctcagtt--ttcacacacacagaattttgtgaatcacacatttgtttgaccatttagttatgtttctgatgcgaacatttactgccctttgcagCCAAGCTTGTCCCAGTTGGATATGGCATCAAGAAGCTGCAAATCATGATGACCATTGTCGATGACCTTGTCTCTGTTGACACTCTCATCGAGGACCATCT
|||| ||||  || |   ||    |  || |||| |  ||  |    | |||| | |    ||| |||| | || |||   ||| || |||  |  |||||||||||||||||||| ||||| || || ||||||||  |||||||||||||||||||||||||||| ||||| || ||||| | ||| || |||||| |  |
gtatgttactacattaaatttcttcctac-gaatgtactgtcttttgcttttgctag----tttggtta-gattgtgacatgaatatataccactgtttgcagCCAAGCTTGTCCCGGTTGGTTACGGTATCAAGAAATTGCAAATCATGATGACCATTGTCGATGATCTTGTGTCGGTTGATAGTCTGATTGAGGACTACTT

upper sequence: GRMZM2G153569_T02 (Zea mays), 3'ss of exon 6
lower sequence: PP1S145_172V6.1 (Physcomitrella patens), 3'ss of exon 4
-------------------gtatattacctcagttttc---acacacacagaattttgtgaatcacacatttgt----ttgaccatttagtt-atgtttctga---tgcgaacatttac-----tgccctttgcagCCAAGCTTGTCCCAGTTGGATATGGCATCAAGAAGCTGCAAATCATGATGACCATTGTCGATGACCTTGTCTCTGTTGACACTCTCATCGAGGACCATCT
                        | ||||  | | ||   | | |     | |   ||| |||  ||  || |     | |   | ||||| ||||   |||   |||   |||  |      ||| |  |||||||||||||||  | || |    ||| ||||||||||| ||||||||||||||||||||||||||||| |||  | | ||||  || || |||||||||||
gtaagtgatttttacggttacgggtcacctgggctgtctgaagatatttccagtacagtgtatcgtacgcttttgactctaaaattgtagtttatgtcaatgagcatgcactcatgcatgattttgctcgatgcagCCAAGCTTGTGACCGTGGTTGCTGGAATCAAGAAGCTTCAAATCATGATGACCATTGTCGATGACCTCGTCAGTATCGACAACCTGATTGAGGACCATCT
















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|5688507|gb|AI941522.1|AI941522
EST:     GAGTGTCCAGATGGAAGGACTGCTTTGGGGCGCAT                         CCAAGCTTGTCCCAGTTGGATATGGCATCAAGAAGCTGCAAATCATGATGA
genomic: GAGTGTCCAGATGGAAGGACTGCTTTGGGGCGCATgtatattacc ... ccctttgcagCCAAGCTTGTCCCAGTTGGATATGGCATCAAGAAGCTGCAAATCATGATGA
EST: gi|31357004|gb|CD441361.1|CD441361
EST:     CGAGGAAGCTGTTAGGAGTGTCCAGATGGAAGGACTGCTTTGGGGCGCAT                         CCAAGCTTGTCCCAGTTGGATATGGCATCAAGAAGCTGCAAATCATGATGA
genomic: CGAGGAAGCTGTTAGGAGTGTCCAGATGGAAGGACTGCTTTGGGGCGCATgtatattacc ... ccctttgcagCCAAGCTTGTCCCAGTTGGATATGGCATCAAGAAGCTGCAAATCATGATGA
EST: gi|4730768|gb|AI649934.1|AI649934
EST:     CGAGGAAGCTGTTAGGAGTGTCCAGATGGAAGGACTGCTTTGGGGCGCAT                         CCAAGCTTGTCCCAGTTGGATATGGCATCAAGAAGCTGCAAATCATGATGA
genomic: CGAGGAAGCTGTTAGGAGTGTCCAGATGGAAGGACTGCTTTGGGGCGCATgtatattacc ... ccctttgcagCCAAGCTTGTCCCAGTTGGATATGGCATCAAGAAGCTGCAAATCATGATGA
EST: gi|60339257|gb|DN206230.1|DN206230
EST:     CGAGGAAGCTGTTAGGAGTGTCCAGATGGAAGGACTGCTTTGGGGCGCAT                         CCAAGCTTGTCCCAGTTGGATATGGCATCAAGAAGCTGCAAATCATGATGA
genomic: CGAGGAAGCTGTTAGGAGTGTCCAGATGGAAGGACTGCTTTGGGGCGCATgtatattacc ... ccctttgcagCCAAGCTTGTCCCAGTTGGATATGGCATCAAGAAGCTGCAAATCATGATGA
EST: gi|76285318|gb|DV024886.1|DV024886
EST:     CGAGGAAGCTGTTAGGAGTGTCCAGATGGAAGGACTGCTTTGGGGCGCAT                         CCAAGCTTGTCCCAGTTGGATATGGCATCAAGAAGCTGCAAATCATGATGA
genomic: CGAGGAAGCTGTTAGGAGTGTCCAGATGGAAGGACTGCTTTGGGGCGCATgtatattacc ... ccctttgcagCCAAGCTTGTCCCAGTTGGATATGGCATCAAGAAGCTGCAAATCATGATGA
EST: gi|211291797|gb|FL131040.1|FL131040
EST:     CGAGGAAGCTGTTAGGAGTGTCCAGATGGAAGGACTGCTTTGGGGCGCAT                         CCAAGCTTGTCCCAGTTGGATATGGCATCAAGAAGCTGCAAATCATGATGA
genomic: CGAGGAAGCTGTTAGGAGTGTCCAGATGGAAGGACTGCTTTGGGGCGCATgtatattacc ... ccctttgcagCCAAGCTTGTCCCAGTTGGATATGGCATCAAGAAGCTGCAAATCATGATGA
EST: gi|32839749|gb|CD979430.1|CD979430
EST:     AGGAAGCTGTTAGGAGTGGCCAGATGGAAGGGCTGCTTTGGGGCGCAT                         CCAAGCTTGTGCCAGTTGGATATGGCATCAAGAAGCTGCAAATCATGATGA
genomic: AGGAAGCTGTTAGGAGTGTCCAGATGGAAGGACTGCTTTGGGGCGCATgtatattacc ... ccctttgcagCCAAGCTTGTCCCAGTTGGATATGGCATCAAGAAGCTGCAAATCATGATGA
EST: gi|6056800|gb|AW091205.1|AW091205
EST:     CGAGGAAGCTGTTAGGAGTGTCCAGATGGAAGGACTGCTTTGGGGCGCAT                         CCAAGCTTGTCCCAGTTGGATATGGCATCAAGAAGCTGCAAATCATGATGA
genomic: CGAGGAAGCTGTTAGGAGTGTCCAGATGGAAGGACTGCTTTGGGGCGCATgtatattacc ... ccctttgcagCCAAGCTTGTCCCAGTTGGATATGGCATCAAGAAGCTGCAAATCATGATGA
EST: gi|32840968|gb|CD980649.1|CD980649
EST:     CGAGGAAGCTGTTAGGAGTGTCCAGATGGAAGGACTGCTTTGGGGCGCAT                         CCAAGCTAGTCCCAGTTGGATATGGCATCAAGAAGCTGCAAATCATGATGA
genomic: CGAGGAAGCTGTTAGGAGTGTCCAGATGGAAGGACTGCTTTGGGGCGCATgtatattacc ... ccctttgcagCCAAGCTTGTCCCAGTTGGATATGGCATCAAGAAGCTGCAAATCATGATGA
EST: gi|4804538|gb|AI665411.2|AI665411
EST:     CGAGGAAGCTGTTAGGAGTGTCCAGATGGAAGGACTGCTTTGGGGCGCAT                         CCAAGCTTGTCCCAGTTGGATATGGCATCAAGAAGCTGCAAATCATGATGA
genomic: CGAGGAAGCTGTTAGGAGTGTCCAGATGGAAGGACTGCTTTGGGGCGCATgtatattacc ... ccctttgcagCCAAGCTTGTCCCAGTTGGATATGGCATCAAGAAGCTGCAAATCATGATGA
EST: gi|67012865|gb|CO441614.1|CO441614
EST:     CGAGGAAGCTGTTAGGAGTGTCCAGATGGAAGGACTGCTTTGGGGCGCAT                         CCAAGCTTGTCCCAGTTGGATATGGCATCAAGAAGCTGCAAATCATGATGA
genomic: CGAGGAAGCTGTTAGGAGTGTCCAGATGGAAGGACTGCTTTGGGGCGCATgtatattacc ... ccctttgcagCCAAGCTTGTCCCAGTTGGATATGGCATCAAGAAGCTGCAAATCATGATGA
EST: gi|84969889|gb|DW468295.1|DW468295
EST:     CGAGGAAGCTGTTAGGAGTGTCCAGATGGAAGGACTGCTTTGGGGCGCAT                         CCAAGCTTGTCCCAGTTGGATATGGCATCAAGAAGCTGCAAATCATGATGA
genomic: CGAGGAAGCTGTTAGGAGTGTCCAGATGGAAGGACTGCTTTGGGGCGCATgtatattacc ... ccctttgcagCCAAGCTTGTCCCAGTTGGATATGGCATCAAGAAGCTGCAAATCATGATGA
EST: gi|31405963|gb|CD484695.1|CD484695
EST:     CGAGGAAGCTGTTAGGAGTGTCCAGATGGAAGGACTGCTTTGGGGCGCAT                         CCAAGCTCGTCCCAGTTGGATATGGCATCAAGAAGCTGCAAATCATGATGA
genomic: CGAGGAAGCTGTTAGGAGTGTCCAGATGGAAGGACTGCTTTGGGGCGCATgtatattacc ... ccctttgcagCCAAGCTTGTCCCAGTTGGATATGGCATCAAGAAGCTGCAAATCATGATGA
EST: gi|4827437|gb|AI668129.1|AI668129
EST:     CGAGGAAGCTGTTAGGAGTGTCCAGATGGAAGGACTGCTTTGGGGCGCAT                         CCAAGCTTGTCCCAGTTGGATATGGCATCAAGAAGCTGCAAATCATGATGA
genomic: CGAGGAAGCTGTTAGGAGTGTCCAGATGGAAGGACTGCTTTGGGGCGCATgtatattacc ... ccctttgcagCCAAGCTTGTCCCAGTTGGATATGGCATCAAGAAGCTGCAAATCATGATGA
EST: gi|33093219|gb|CF053213.1|CF053213
EST:     CGAGGAAGCTGTTAGGAGTGTCCAGATGGAAGGACTGCTTTGGGGCGCAT                         CCAAGCTTGTCCCAGTTGGATATGGCATCAAGAAGCTGCAAATCATGATGA
genomic: CGAGGAAGCTGTTAGGAGTGTCCAGATGGAAGGACTGCTTTGGGGCGCATgtatattacc ... ccctttgcagCCAAGCTTGTCCCAGTTGGATATGGCATCAAGAAGCTGCAAATCATGATGA
EST: gi|6695529|gb|AW288637.1|AW288637
EST:     GAAGGACTGCTTTGGGGCGCAT                         CCAAGCTTGTCCCAGTTGGATATGGCATCAAGAAGCTGCAAATCATGATGA
genomic: GAAGGACTGCTTTGGGGCGCATgtatattacc ... ccctttgcagCCAAGCTTGTCCCAGTTGGATATGGCATCAAGAAGCTGCAAATCATGATGA
EST: gi|89106046|gb|DY576263.1|DY576263
EST:     CGAGGAAGCTGTTAGGAGTGTCCAGATGGAAGGACTGCTTTGGGGCGCAT                         CCAAGCTTGTCCCAGTTGGATATGGCATCAAGAAGCTGCAAATCATGATGA
genomic: CGAGGAAGCTGTTAGGAGTGTCCAGATGGAAGGACTGCTTTGGGGCGCATgtatattacc ... ccctttgcagCCAAGCTTGTCCCAGTTGGATATGGCATCAAGAAGCTGCAAATCATGATGA
EST: gi|32846492|gb|CD986173.1|CD986173
EST:     CGAGGAAGCTGTTAGGAGTGTCCAGATGGAAGGACTGCTTTGGGGCGCAT                         CCAAGCTTGTCCCAGTTGGATATGGCATCAAGAAGCTGCAAATCATGATGA
genomic: CGAGGAAGCTGTTAGGAGTGTCCAGATGGAAGGACTGCTTTGGGGCGCATgtatattacc ... ccctttgcagCCAAGCTTGTCCCAGTTGGATATGGCATCAAGAAGCTGCAAATCATGATGA
EST: gi|6021987|gb|AW066915.1|AW066915
EST:     CGAGGAAGCTGTTAGGAGTGTCCAGATGGAAGGGCTGCTTTGGGGCGCAT                         CCAAGCTTGTCCCAGTTGGATATGGCATCAAGAAGCTGCAAATCATGATGA
genomic: CGAGGAAGCTGTTAGGAGTGTCCAGATGGAAGGACTGCTTTGGGGCGCATgtatattacc ... ccctttgcagCCAAGCTTGTCCCAGTTGGATATGGCATCAAGAAGCTGCAAATCATGATGA
EST: gi|67037468|gb|CO464282.1|CO464282
EST:     CGAGGAAGCTGTTAGGAGTGTCCAGATGGAAGGACTGCTTTGGGGCGCAT                         CCAAGCTTGTCCCAGNTGGATATGGGCATCA-GAAGCTGNCAA-TCATGAT
genomic: CGAGGAAGCTGTTAGGAGTGTCCAGATGGAAGGACTGCTTTGGGGCGCATgtatattacc ... ccctttgcagCCAAGCTTGTCCCAGTTGGATATGG-CATCAAGAAGCTG-CAAATCATGAT
EST: gi|60398710|gb|DN231526.1|DN231526
EST:     CGAGGAAGCTGTTAGGAGTGTCCAGATGGAAGGACTGCTTTGGGGCGCAT                         CCAAGCTTGTCCCAGTTGGATATGGCATCAAGAAGCTGCAAATCATGATGA
genomic: CGAGGAAGCTGTTAGGAGTGTCCAGATGGAAGGACTGCTTTGGGGCGCATgtatattacc ... ccctttgcagCCAAGCTTGTCCCAGTTGGATATGGCATCAAGAAGCTGCAAATCATGATGA
EST: gi|113848064|gb|DW962767.1|DW962767
EST:     CGAGGAAGCTGTTAGGAGTGTCCAGATGGAAGGACTGCTTTGGGGCGCAT                         CCAAGCTTGTCCCAGTTGGATATGGCA
genomic: CGAGGAAGCTGTTAGGAGTGTCCAGATGGAAGGACTGCTTTGGGGCGCATgtatattacc ... ccctttgcagCCAAGCTTGTCCCAGTTGGATATGGCA
EST: gi|116815743|gb|EC858430.1|EC858430
EST:     CGA-GAAGCTGTTAGGAGT-T-CAGATGGAAGGACTGCTTTGGGGCGCAT                         -CAAGCTTGTCCCAGTTGGATATGGCATCAAGAAGCTGCAAATCATGATGA
genomic: CGAGGAAGCTGTTAGGAGTGTCCAGATGGAAGGACTGCTTTGGGGCGCATgtatattacc ... ccctttgcagCCAAGCTTGTCCCAGTTGGATATGGCATCAAGAAGCTGCAAATCATGATGA
EST: gi|16378152|gb|BI992294.1|BI992294
EST:     CGAGGAAGCTGTTAGGAGTGTCCAGATGGAAGGACTGCTTTGGGGCGCAT                         CCAAGCTTGTCCCAGTTGGATATGGCATCAAGAAGCTGCAAATCATGATGA
genomic: CGAGGAAGCTGTTAGGAGTGTCCAGATGGAAGGACTGCTTTGGGGCGCATgtatattacc ... ccctttgcagCCAAGCTTGTCCCAGTTGGATATGGCATCAAGAAGCTGCAAATCATGATGA
EST: gi|67016304|gb|CO445053.1|CO445053
EST:     CGAGGAAGCTGTTAGGAGTGTCCAGATGGAAGGACTGCTTTGGGGCGCAT                         CCAAGCTTGTCCCAGNTGGATATGGCATCAAGAAGCTGCAAATCATGATGA
genomic: CGAGGAAGCTGTTAGGAGTGTCCAGATGGAAGGACTGCTTTGGGGCGCATgtatattacc ... ccctttgcagCCAAGCTTGTCCCAGTTGGATATGGCATCAAGAAGCTGCAAATCATGATGA
EST: gi|8273074|gb|BE012169.1|BE012169
EST:     CGAGGAAGCTGTTAGGAGTGTCCAGATGGAAGGACTGCTTTGGGGCGCAT                         CCAAGCTTGTCCCAGTTGGATATGGCATCAAGAAGCTGCAAATCATGATGA
genomic: CGAGGAAGCTGTTAGGAGTGTCCAGATGGAAGGACTGCTTTGGGGCGCATgtatattacc ... ccctttgcagCCAAGCTTGTCCCAGTTGGATATGGCATCAAGAAGCTGCAAATCATGATGA
EST: gi|84977404|gb|DW475826.1|DW475826
EST:     CGAGGAAGCTGTTAGGAGTGTCCAGATGGAAGGACTGCTTTGGGGCGCAT                         CCAAGCTTGTCCCAGTTGGATATGGCATCAAGAAGCTGCAAATCATGATGA
genomic: CGAGGAAGCTGTTAGGAGTGTCCAGATGGAAGGACTGCTTTGGGGCGCATgtatattacc ... ccctttgcagCCAAGCTTGTCCCAGTTGGATATGGCATCAAGAAGCTGCAAATCATGATGA
EST: gi|31406066|gb|CD484798.1|CD484798
EST:     CGAGGAAGCTGTTAGGAGTGTCCAGATGGAAGGACTGCTTTGGGGCGCAT                         CCAAGCTCGTCCCAGTTGGATATGGCATCAAGAAGCTGCAAATCATGATGA
genomic: CGAGGAAGCTGTTAGGAGTGTCCAGATGGAAGGACTGCTTTGGGGCGCATgtatattacc ... ccctttgcagCCAAGCTTGTCCCAGTTGGATATGGCATCAAGAAGCTGCAAATCATGATGA
EST: gi|31440896|gb|CD510327.1|CD510327
EST:     CGAGGAAGCTGTTAGGAGTGTCCAGATGGAAGGACTGCTTTGGGGCGCAT                         CCAAGCTCGTCCCAGTTGGATATGGCATCAAGAAGCTGCAAATCATGATGA
genomic: CGAGGAAGCTGTTAGGAGTGTCCAGATGGAAGGACTGCTTTGGGGCGCATgtatattacc ... ccctttgcagCCAAGCTTGTCCCAGTTGGATATGGCATCAAGAAGCTGCAAATCATGATGA
EST: gi|71315076|gb|DR794166.1|DR794166
EST:     CGAGGAAGCTGTTAGGAGTGTCCAGATGGAAGGACTGCTTTGGGGCGCAT                         CCAAGCTTGTCCCAGTTGGATATGGCATCAAGAAGCTGCAAATCATGATGA
genomic: CGAGGAAGCTGTTAGGAGTGTCCAGATGGAAGGACTGCTTTGGGGCGCATgtatattacc ... ccctttgcagCCAAGCTTGTCCCAGTTGGATATGGCATCAAGAAGCTGCAAATCATGATGA
EST: gi|33093139|gb|CF053133.1|CF053133
EST:     CGAGGAAGCTGTTAGGAGTGTCCAGATGGAAGGACTGCTTTGGGGCGCAT                         CCAAGCTTGTCCCAGTTGGATATGGCATCAAGAAGCTGCAAATCATGATGA
genomic: CGAGGAAGCTGTTAGGAGTGTCCAGATGGAAGGACTGCTTTGGGGCGCATgtatattacc ... ccctttgcagCCAAGCTTGTCCCAGTTGGATATGGCATCAAGAAGCTGCAAATCATGATGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atttgtttgaccatttagttatgtttctgatgcgaacatttactgccctttgcagCCAAGCTTGTCCCAGTTGGATATGGCATCAAGAAGCTGCAAATCATGATGACCATTGTCGATGACCTTGTCTCTGTTGACACTCTCATCGAGGACCATCT
                        ttctgat  putative branch site (score: 3)
                                          ctgcccttt  putative PPT
            atttagttatgttt  TA-rich tract