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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atatcaatatttttttatttttttctgtgatgcttaaattttaagttgattgatcaacatgaactattgctaatgacgttagttttttccctggttgtagGATGCAGGAATTGGCACAAGCATTGATTCATTCTATGAATATCTTCTAAAG

Basic information

species Zea mays
transcript GRMZM2G173868_T04
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G173868_T02 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os01g56670.3 (Oryza sativa), 3'ss of exon 8
atatcaatatttttttatttttttctgtgatgcttaaattttaagttgattgatcaac-atgaactattgctaatgacgttagttttttccctggttgtagGATGCAGGAATTGGCACAAGCATTGATTCATTCTATGAATATCTTCTAAAG
|    ||| |  ||| |  ||||  || |||| |||  || | || | |||||||||  || | |      || |  |  | |  || |||||  ||| |||||||||||||||||||||||||||| ||||||||||| ||||||||||||
agcaaaatgtgctttcaaatttta-tgcgatgtttagtttatgagattattgatcaattatcatcatgaagtattttcagtggaattatccctaattgcagGATGCAGGAATTGGCACAAGCATTGACTCATTCTATGAGTATCTTCTAAAG

upper sequence: GRMZM2G173868_T02 (Zea mays), 3'ss of exon 8
lower sequence: PP1S313_34V6.1 (Physcomitrella patens), 3'ss of exon 8
atatcaatattttt-ttatttttttctgtgat-gcttaaattttaagtt-gattgatcaacatgaactattgctaatgacgttagttttttccctg-gttgtagGATGCAGGAATTGGCACAAGCATTGATTCATTCTATGAATATCTTCTAAAG
   | |  |||     || |  ||  |||| | |||    | || ||   ||    |  | |||    ||||| |||     |  |        || | | ||||||||||| ||||| || ||||||||||| |||||||| || || || |||
---ttaggattgaagctagtgattcatgtgtttgctctgctgtttagcaagaacactgcagatgctaaattgc-aatattactcatgcggggtatgtgctatagGATGCAGGCATTGGTACCAGCATTGATTCGTTCTATGAGTACCTACTCAAG
















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|71445066|gb|DR826116.1|DR826116
EST:     ATCTTGTTGGTGCCCATATAAATGTCTTTACTGGTGAATGGACACAGAAG                         GATGCAGGAATTGGCACAAGCATTGATTCATTCTATGAATATCTTCTAAAG
genomic: ATCTTGTTGGTGCCCATATAAATGTCTTTACTGGTGAATGGACACAGAAGgtttggtttt ... ctggttgtagGATGCAGGAATTGGCACAAGCATTGATTCATTCTATGAATATCTTCTAAAG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgattgatcaacatgaactattgctaatgacgttagttttttccctggttgtagGATGCAGGAATTGGCACAAGCATTGATTCATTCTATGAATATCTTCTAAAG
                      tgctaat  putative branch site (score: 2)
                                 ttagttttttccct  putative PPT
                                 ttagtttttt  TA-rich tract