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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattactttattgcacttgtgactgaaaaatccacctgtcctgtcctaacaaaaaaaagtaggaaacacattgttgataaacattttatccgcctaatggagcagtgccacaattgttgaacttgattgtgtctgactgtcttctggttattcaaaaatcaattaatcaattatctttttcagGTCCACATGTTGGATATCGAATGTTTTTCTTATCTTAACCGTGCATTGGAGAGCCCATTATCACCAATCGTGATACTTGCTACAAATAGGGGAATATGTA

Basic information

species Zea mays
transcript GRMZM2G018697_T03
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G018697_T04 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os01g62040.1 (Oryza sativa), 3'ss of exon 7
gtattactttattgcacttgtgactgaaaaatccacctgtcctgtcctaacaaaaaaaagtaggaaacacattgttgataaacattttatccgcctaatggagcagtgccacaat-tgttgaacttgattgtgtctgactgtcttctggtt-attcaaaaatcaattaatcaattatctttttcagGTCCACATGTTGGATATCGAATGTTTTTCTTATCTTAACCGTGCATTGGAGAGCCCATTATCACCAATCGTGATACTTGCTACAAATAGGGGAATATGTA
                                                                                    | | |      || |      || | || || || |  |    | | ||||| | |||  | || || | | |   || | |      |   |   || |||||||||||| | ||||| ||||| || ||||||||||| |||||  |||||||||||||||||||||| ||||||||||| |||||||| ||||||||||
----------------------------------------------------------------------------------tgtataacttatttattactattgttctactatatggtaga----aatatgtcttaatgttgtttgatttaattacttattattgttaggaactttaattgcagGTCCACATGCTAGATATTGAATGCTTCTCTTATCTTAATCGTGCTCTGGAGAGCCCATTATCACCAATTGTGATACTTGCGACAAATAGAGGAATATGTA

upper sequence: GRMZM2G018697_T04 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os07g08170.1 (Oryza sativa), 3'ss of exon 7
gtattactttattgcacttgtgactgaaaaatccacctgtcctgtcctaacaaaaaaaagtaggaaacacattgttgataaacattttatccgcctaatggagcagtgccaca-attgttgaacttgattgtgtctgactgtcttctggttattcaaaaatcaattaatcaattatctttttcagGTCCACATGTTGGATATCGAATGTTTTTCTTATCTTAACCGTGCATTGGAGAGCCCATTATCACCAATCGTGATACTTGCTACAAATAGGGGAATATGTA
                                                                     | |||| |   |      ||    | |  |    |  | | | |   | |  | ||||||   || ||| |      | |||| |    |   | ||    |||         |||||||||||||| || || ||||| || ||||||||||| ||||| ||||||||||||||||||||||| |||||||||||||| || || ||||||||||
---------------------------------------------------------------------ccttgtggggcagtgccatactgccatgctatttctctactatatggtataaatcttgatgtggtttgatt------tagttacttgtgaggaactt---taatcg-------cagGTCCACATGTTAGACATTGAATGCTTCTCTTATCTTAATCGTGCTTTGGAGAGCCCATTATCACCAATTGTGATACTTGCTACGAACAGAGGAATATGTA
















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|60340836|gb|DN207809.1|DN207809
EST:     TCGATGAAGGAATTGCAGAGCTTGTACCTGGTGTTTTGTTCATTGATGAG                         GTCCACATGTTGGATATCGAATGTTTTTCTTATCTTAACCGTGCATTGGAG
genomic: TCGATGAAGGAATTGCAGAGCTTGTACCTGGTGTTTTGTTCATTGATGAGgtattacttt ... tctttttcagGTCCACATGTTGGATATCGAATGTTTTTCTTATCTTAACCGTGCATTGGAG
EST: gi|22490622|gb|BU050545.1|BU050545
EST:     TCGATGAAGGAATTGCAGAGCTTGTACCTGGTGTTTTGTTCATTGATGAG                         GTCCACATGTTGGATATCGAATGTTTTTCTTATCTTAACCGTGCATTGGAG
genomic: TCGATGAAGGAATTGCAGAGCTTGTACCTGGTGTTTTGTTCATTGATGAGgtattacttt ... tctttttcagGTCCACATGTTGGATATCGAATGTTTTTCTTATCTTAACCGTGCATTGGAG
EST: gi|61118430|gb|DN559391.1|DN559391
EST:     TCGATGAAGGAATTGCAGAGCTTGTACCTGGTGTTTTGTTCATTGATGAG                         GTCCACATGTTGGATATCGAATGTTTTTCTTATCTTAACCGTGCATTGGAG
genomic: TCGATGAAGGAATTGCAGAGCTTGTACCTGGTGTTTTGTTCATTGATGAGgtattacttt ... tctttttcagGTCCACATGTTGGATATCGAATGTTTTTCTTATCTTAACCGTGCATTGGAG
EST: gi|113563309|gb|DW738296.1|DW738296
EST:     GGTGTTTTGTTCATTTGATGAG                         GTCCACATGTTGGATATCGAATGTTTTTCTTATCTTAACCGTGCATTGGA
genomic: GGTGTTTTGTTCA-TTGATGAGgtattacttt ... tctttttcagGTCCACATGTTGGATATCGAATGTTTTTCTTATCTTAACCGTGCATTGGA
EST: gi|87152471|gb|DY397260.1|DY397260
EST:     TCGATGAAGGAATTGCAGAGCTTGTACCTGGTGTTTTGTTCATTGATGAG                         GTCCACATGTTGGATATCGAATGTTTTTCTTATCTTAACCGTGCATTGGAG
genomic: TCGATGAAGGAATTGCAGAGCTTGTACCTGGTGTTTTGTTCATTGATGAGgtattacttt ... tctttttcagGTCCACATGTTGGATATCGAATGTTTTTCTTATCTTAACCGTGCATTGGAG
EST: gi|13126372|gb|BG316942.1|BG316942
EST:     CGATGAAGGAATTGCAGCAGCTTGTACCTGGTGTTTTGTTCATTGATGAG                         GTCCACATGTTGGATATCGAATGTTTTTCTTATCTTAACCGTGCATTG
genomic: CGATGAAGGAATTGCAG-AGCTTGTACCTGGTGTTTTGTTCATTGATGAGgtattacttt ... tctttttcagGTCCACATGTTGGATATCGAATGTTTTTCTTATCTTAACCGTGCATTG
EST: gi|61118429|gb|DN559390.1|DN559390
EST:     TCGATGAAGGAATTGCAGAGCTTGTACCTGGTGTTTTGTTCATTGATGAG                         GTCCACATGTTGGATATCGAATGTTTTTCTTATCTTAACCGTGCATTGGAG
genomic: TCGATGAAGGAATTGCAGAGCTTGTACCTGGTGTTTTGTTCATTGATGAGgtattacttt ... tctttttcagGTCCACATGTTGGATATCGAATGTTTTTCTTATCTTAACCGTGCATTGGAG
EST: gi|31612366|gb|CD568988.1|CD568988
EST:     TCGATGAAGGAATTGCAGAGCTTGTACCTGGTGTTTTGTTCATTGATGAG                         GTCCACATGTTGGATATCGAATGTTTTTCTTATCTTAACCGTGCATTGGAG
genomic: TCGATGAAGGAATTGCAGAGCTTGTACCTGGTGTTTTGTTCATTGATGAGgtattacttt ... tctttttcagGTCCACATGTTGGATATCGAATGTTTTTCTTATCTTAACCGTGCATTGGAG
EST: gi|213174323|gb|FM191608.1|FM191608
EST:     TCGATGAAGGAATTGCAGAGCTTGTACCTGGTGTTTTATTCATTGACGAG                         GTCCACATGTTGGATATCGAATGTTTTTCTTATCTTAACCGTGCATTGGAG
genomic: TCGATGAAGGAATTGCAGAGCTTGTACCTGGTGTTTTGTTCATTGATGAGgtattacttt ... tctttttcagGTCCACATGTTGGATATCGAATGTTTTTCTTATCTTAACCGTGCATTGGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgtctgactgtcttctggttattcaaaaatcaattaatcaattatctttttcagGTCCACATGTTGGATATCGAATGTTTTTCTTATCTTAACCGTGCATTGGAGAGCCCATTATCACCAATCGTGATACTTGCTACAAATAGGGGAATATGTA
                                aattaat  putative branch site (score: 3)
                                          ttatctttttc  putative PPT
                   ttattcaaaaatcaat  TA-rich tract