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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgtaaaatttgataaatattttctaaagaggacgcagatttttctagatgttctgaatacacataattgatcatatttcttgccatggccacttgcttttgcagGTCTTACAGTTGCTTCATTTTGCTATCTACAGTTTTTTCCATATCCTTTTGATGGCGATG

Basic information

species Zea mays
transcript GRMZM2G024615_T05
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G024615_T05 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os09g13870.3 (Oryza sativa), 3'ss of exon 6
-------gtttgtaaaatttgataaatattttctaaagaggacgcagatttttctagatgttctgaatacacataattgatcatatttcttgccatggccactt--gcttttgcagGTCTTACAGTTGCTTCATTTTGCTATCTACAGTTTTTTCCATATCCTTTTGATGGCGATG
        |||  | ||| | | || ||| | |  |||||| |  ||   | |||| | |    ||| | | | |         ||||||||     | || ||   || |||||||||||||||| || |||||||| ||||| || || || |||||||||| ||| |  || |
gtttgcaatttcaataatataacaattatatgc--aagaggtcctagcactatctaaaag----gaaaaaaaaaatccacaaccatttcttgattctggcatttctcctgttgcagGTCTTACAGTCGCATCATTTTGTTATCTGCAATTCTTCCCATATCCTTATGACGCAGACG
















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|37381562|gb|CF627675.1|CF627675
EST:     GGATGACTACTGGCATCATTGGCAAGATGTATTTGCAGGGGGTCTTATAG                         GTCTTACAGTTGCTTCATTTTGCTATCTACAGTTTTTTCCATATCCTTTTG
genomic: GGATGACTACTGGCATCATTGGCAAGATGTATTTGCAGGGGGTCTTATAGgtttgtaaaa ... gcttttgcagGTCTTACAGTTGCTTCATTTTGCTATCTACAGTTTTTTCCATATCCTTTTG
EST: gi|211034181|gb|FL478457.1|FL478457
EST:     GGATGACTACTGGCATCATTGGCAAGATGTATTTGCAGGGGGTCTTATAG                         GTCTTACAGTTGCTTCATTTTGCTATCTACAGTTTTTTCCATATCCTTTTG
genomic: GGATGACTACTGGCATCATTGGCAAGATGTATTTGCAGGGGGTCTTATAGgtttgtaaaa ... gcttttgcagGTCTTACAGTTGCTTCATTTTGCTATCTACAGTTTTTTCCATATCCTTTTG
EST: gi|71432015|gb|DR813065.1|DR813065
EST:     GGATGACTACTGGCATCATTGGCAAGATGTATTTGCAGGGGGTCTTATAG                         GTCTTACAGTTGCTTCATTTTGCTATCTAC
genomic: GGATGACTACTGGCATCATTGGCAAGATGTATTTGCAGGGGGTCTTATAGgtttgtaaaa ... gcttttgcagGTCTTACAGTTGCTTCATTTTGCTATCTAC
EST: gi|40287149|gb|CK327541.1|CK327541
EST:     GGATGACTACTGGCATCATTGGCAAGATGTATTTGCAGGGGGTCTTATAG                         GTCTTACAGTTGCTTCATTTTGCTATCTACAGTTTTTTCCATATCCTTTTG
genomic: GGATGACTACTGGCATCATTGGCAAGATGTATTTGCAGGGGGTCTTATAGgtttgtaaaa ... gcttttgcagGTCTTACAGTTGCTTCATTTTGCTATCTACAGTTTTTTCCATATCCTTTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttctgaatacacataattgatcatatttcttgccatggccacttgcttttgcagGTCTTACAGTTGCTTCATTTTGCTATCTACAGTTTTTTCCATATCCTTTTGATGGCGATG
               aattgat  putative branch site (score: 4)
                                          cttgctttt  putative PPT
             ataattgatcatattt  TA-rich tract