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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtggattaaacaacccatcatcatcattcttcttccttgttagttatgatacccacgcttgcctttcatgaatcatgatcctatagatatttgatattaatcagttctggaaagttgaacaacatttgagcatgtcaaaacctgatcgttgcctgttccatgacaacagTGGAGAGCACAACTTGCCGGACAGCCCATTTGCGTCCCCTACCAAGTCTGCCGCGCTCGTGCACGACAGTTTCGCCGCCACGGAGCCTGAGAACACCGCG

Basic information

species Zea mays
transcript GRMZM2G003424_T01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G003424_T01 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os03g21160.1 (Oryza sativa), 3'ss of exon 6
gtggattaaacaacccatcatcatcattcttcttccttgttagttatgatacccacgcttgcctttcatgaatcatgatcctatagatatttgatattaatcagttctggaaagttgaacaacatttgagcatgtcaaaacctgatcgttgcctgttccatgacaacagTGGAGAGCACAACTTGCCGGACAGCCCATTTGCGTCCCCTACCAAGTCTGCCGCGCTCGTGCACGACAGTTTCGCCGCCACGGAGCCTGAGAACACCGCG---
|| ||||       |||| ||   |||||| ||| ||  | | || | | ||  | |        |||||||  |  | |||| | ||   ||  |||| || ||    |||||||         || | |||         || | || || |||    |||   |||||| |||||||||||||| |||||||| ||||| ||| ||||||||||  ||||  || |  ||  ||    ||| ||||| |    ||  | |   |     
gtagatt---tttaccattattggcattctgcttgctcatga-ttctcagactaatgtcattaactcatgaacaacaagcctacaaat--ctgcaattattccgtggctgaaagtt------tgcttcaccat---------tgtttgt-gcatgtattttga--gcagTGGTGAGCACAACTTGCCAGACAGCCCGTTTGCTTCCTCTACCAAGTCGACCGCATTCTT-TACCGCAAC--CGCTGCCACTGCCATTGGTAGCGAGGGAGAT
















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|101390215|gb|EB817041.1|EB817041
EST:     GAAGAATCTGCTTGCGAGGCGAGCCCTGACGCCGCTGATAGCGACCAAAG                         TGGAGAGCACAACTTGCCGGACAGCCCATTTGCGTCCCCTACCAAGTCTGC
genomic: GAAGAATCTGCTTGCGAGGCGAGCCCTGACGCCGCTGATAGCGACCAAAGgtggattaaa ... atgacaacagTGGAGAGCACAACTTGCCGGACAGCCCATTTGCGTCCCCTACCAAGTCTGC
EST: gi|87156061|gb|DY400850.1|DY400850
EST:     GAAGAATCTGCTTGCGAGGCGAGCCCTGACGCCGCTGATAGCGACCAAAG                         TGGAGATCACAACTTGCCGGACAGCCCATTTGCGTCCCCTACCAAGTCTGC
genomic: GAAGAATCTGCTTGCGAGGCGAGCCCTGACGCCGCTGATAGCGACCAAAGgtggattaaa ... atgacaacagTGGAGAGCACAACTTGCCGGACAGCCCATTTGCGTCCCCTACCAAGTCTGC
EST: gi|71435849|gb|DR816899.1|DR816899
EST:     GAAGAATCTGCTTGCGAGGCGAGCCCTGACGCCGCTGATAGCGACCAAAG                         TGGAGAGCACAACTTGCCGGACAGCCCATTTGCGTCCCCTACCAAGTCTGC
genomic: GAAGAATCTGCTTGCGAGGCGAGCCCTGACGCCGCTGATAGCGACCAAAGgtggattaaa ... atgacaacagTGGAGAGCACAACTTGCCGGACAGCCCATTTGCGTCCCCTACCAAGTCTGC
EST: gi|31441063|gb|CD510494.1|CD510494
EST:     GAAGAATCTGCTTGCGAGGCGAGCCCTGACGCCGCTGATAGCGACCAAAG                         TGGAGAGCACAACTTGCCGGACAGCCCATTTGCGTCCCCTACCAAGTCTGC
genomic: GAAGAATCTGCTTGCGAGGCGAGCCCTGACGCCGCTGATAGCGACCAAAGgtggattaaa ... atgacaacagTGGAGAGCACAACTTGCCGGACAGCCCATTTGCGTCCCCTACCAAGTCTGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgaacaacatttgagcatgtcaaaacctgatcgttgcctgttccatgacaacagTGGAGAGCACAACTTGCCGGACAGCCCATTTGCGTCCCCTACCAAGTCTGCCGCGCTCGTGCACGACAGTTTCGCCGCCACGGAGCCTGAGAACACCGCG
                         acctgat  putative branch site (score: 4)
      aacattt  TA-rich tract