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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcagaatgctttctacatgatttcagtaacatcttataatggagttatatcactcactgcatcggtgcccatttgctagGTTGCTGATTTTGGTCTTGCAAGGTTAGCTATGGATGCTTGCACTCATGTAACCACACGAGTGATGGGAACTTTCGG

Basic information

species Zea mays
transcript GRMZM5G872442_T02
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G872442_T02 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os01g02040.1 (Oryza sativa), 3'ss of exon 4
gtcagaatgctttctacatgatttcagtaacatcttataatggagttat-atcactcactgcatcggtgcccatttgctagGTTGCTGATTTTGGTCTTGCAAGGTTAGCTATGGATGCTTGCACTCATGTAACCACACGAGTGATGGGAACTTTCGG
|| | ||   | | || || | ||  |  |    ||||||||     ||  | ||| | ||    | |   | | || ||||||||||||||||| ||||||||  |||||||||||||   ||| |||||||| ||||| |||||||||||||| ||
gtaacaacattatttagataaattgggagaggcgttataatgtgaccattgttactaattg-gctgctattcgtgtgttagGTTGCTGATTTTGGCCTTGCAAGACTAGCTATGGATGCAGTCACGCATGTAACTACACGGGTGATGGGAACTTTTGG
















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|26559092|gb|CA831327.1|CA831327
EST:     GGGATATAAAGTCCTCCAATATCTTGCTGGATAATAACTTTGAAGCACTG                         GTTGCTGATTTTGGTCTTGCAAGGTTAGCTATGGATGCTTGCACTCATGTA
genomic: GGGATATAAAGTCCTCCAATATCTTGCTGGATAATAACTTTGAAGCACTGgtcagaatgc ... catttgctagGTTGCTGATTTTGGTCTTGCAAGGTTAGCTATGGATGCTTGCACTCATGTA
EST: gi|22520879|gb|BU079690.1|BU079690
EST:     GGGATATAAAGTCCTCCAATATCTTGCTGGATAATAACTTTGAAGCACTG                         GTTGCTGATTTTGGTCTTGCAAGGTTAGCTATGGATGCTTGCACTCATGTA
genomic: GGGATATAAAGTCCTCCAATATCTTGCTGGATAATAACTTTGAAGCACTGgtcagaatgc ... catttgctagGTTGCTGATTTTGGTCTTGCAAGGTTAGCTATGGATGCTTGCACTCATGTA
EST: gi|71432382|gb|DR813432.1|DR813432
EST:     GGGATATAAAGTCCTCCAATATCTTGCTGGATAATAACTTTGAAGCACTG                         GTTGCTGATTTTGGTCTTGCAAGGTTAGCTATGGATGCTTGCACTCATGTA
genomic: GGGATATAAAGTCCTCCAATATCTTGCTGGATAATAACTTTGAAGCACTGgtcagaatgc ... catttgctagGTTGCTGATTTTGGTCTTGCAAGGTTAGCTATGGATGCTTGCACTCATGTA
EST: gi|87156672|gb|DY401461.1|DY401461
EST:     GGGATATAAAGTCCTCCAATATCTTGCTGGATAATAACTTTGAAGCACTG                         GTTGCTGATTTTGGTCTTGCAAGGTTAGCTATGGATGCTTGCACTCATGTA
genomic: GGGATATAAAGTCCTCCAATATCTTGCTGGATAATAACTTTGAAGCACTGgtcagaatgc ... catttgctagGTTGCTGATTTTGGTCTTGCAAGGTTAGCTATGGATGCTTGCACTCATGTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agtaacatcttataatggagttatatcactcactgcatcggtgcccatttgctagGTTGCTGATTTTGGTCTTGCAAGGTTAGCTATGGATGCTTGCACTCATGTAACCACACGAGTGATGGGAACTTTCGG
                          cactcac  putative branch site (score: 2)
                                           cccattt  putative PPT
      atcttataat  TA-rich tract