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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttgtatgcatgaatcacagattcacagtaatacagtgcatacatatctaggtgcaacacatgcattaatactctggttcttttaaattagATTCTTGTTGCTACTCCTGGAAGGCTAAAGGATCATCTTGAGAACACGCCTGGATTCTCCACCCGAATTAGAGGTGTCAAGGTTCTTGTTCTAGATGAGG

Basic information

species Zea mays
transcript GRMZM2G156158_T01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G156158_T01 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA16G02880.1 (Glycine max), 3'ss of exon 4
--gttgtatgcatgaatcacagattcacagtaatacagtgcatacatatctaggtgcaacacatgc-attaatactc-tggttcttttaaat------tagATTCTTGTTGCTACTCCTGGAAGGCTAAAGGATCATCTTGAGAACACGCCTGGATTCTCCACCCGAATTAGAGGTGTCAAGGTTCTTGTTCTAGATGAGG
    |     |  |  |  |||| |     | ||  | |    |  | |      || |||  | |  || | || | |  ||  |||  ||       |||| |||||||||||||||||||||||||  ||||||  |||||| ||  |||| ||  | ||  |  | |  ||||| |||||  | || || ||||| |
taactactaactagtttttcagactt-tgttgattgaatattgagttctgcttaagctacatgttctgttgacacccatttttaatttgcatactgtacagATCCTTGTTGCTACTCCTGGAAGGCTAAGAGATCATACTGAGAATACTGCTGGTTTTGCAACTAGGCTGATGGGTGTGAAGGTCTTGGTGCTTGATGAAG
















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|211328610|gb|FK972861.1|FK972861
EST:     GCACACGGTTACCTCAAGAGCAACGGAGCATGCAAGCTAACCCATGTCAG                         AATCTTGGTGCTACTCCTGGAANGGCTAA-GGATCATCTTGAGAACACGCC
genomic: GCACACGGTTACCTCAAGAGCAACGGAGCATGCAAGCTAACCCATGTCAGgttgtatgca ... tttaaattagATTCTTGTTGCTACTCCTGGAA-GGCTAAAGGATCATCTTGAGAACACGCC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgcatacatatctaggtgcaacacatgcattaatactctggttcttttaaattagATTCTTGTTGCTACTCCTGGAAGGCTAAAGGATCATCTTGAGAACACGCCTGGATTCTCCACCCGAATTAGAGGTGTCAAGGTTCTTGTTCTAGATGAGG
                           cattaat  putative branch site (score: 3)
                                         ttctttt  putative PPT
                                         ttcttttaaatta  TA-rich tract