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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgcaaaatgtcatgcacatacacaatttcacatccttctaagttatctatactatacttagattagagtaccttctggtttgattgtttagGTTCCTGAAGCCCTTATTCCTCCAGCAGGGGCTCGTGTTATGTCCCTAACTGATGGTCTCTCCAAG

Basic information

species Zea mays
transcript GRMZM2G177970_T02
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G177970_T03 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os01g54020.1 (Oryza sativa), 3'ss of exon 9
gtatgcaaaatgtcatgcacataca---------caatttcacatccttctaagttat--ctatactatacttagattagagtaccttctggtttgattgtttagGTTCCTGAAGCCCTTATTCCTCCAGCAGGGGCTCGTGTTATGTCCCTAACTGATGGTCTCTCCAAG
|| ||    || | ||  | |||           | |||| | | |||   |||| |   ||  ||| |  || | |||   ||| ||||  |||  ||  ||||||||||||||||||||| ||||||||||||||||||||||||||| |||| || ||||||||||||
gtgtgtgccatattatttatatatggttcagcatccattttataccctcggaagtcagaactgaactttgttttgcttattatactttct--ttttgtttattagGTTCCTGAAGCCCTTATACCTCCAGCAGGGGCTCGTGTTATGTCCTTAACCGACGGTCTCTCCAAG
















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|32944158|gb|CF048977.1|CF048977
EST:     AGGGAGAGGGGGTTTGCTATTTAAG                         GTTCCTGAAGCCCTTATTCCTCCAGCAGGGGCTCGTGTTATGTCCCTAACT
genomic: AGGGAGAGGGGGTTTGCTATTTAAGgtatgcaaaa ... gattgtttagGTTCCTGAAGCCCTTATTCCTCCAGCAGGGGCTCGTGTTATGTCCCTAACT
EST: gi|71449704|gb|DR830754.1|DR830754
EST:     AGGGAGAGGGGGTTTGCTATTTAAG                         GTTCCTGAAGCCCTTATTCCCTCC-GCAGGGGCTCGTGTTATGTCCCTAAC
genomic: AGGGAGAGGGGGTTTGCTATTTAAGgtatgcaaaa ... gattgtttagGTTCCTGAAGCCCTTATTCC-TCCAGCAGGGGCTCGTGTTATGTCCCTAAC
EST: gi|50331394|gb|CO526520.1|CO526520
EST:     AGGGAGAGGGGGTTTGCTATTTAAG                         GTTCCTGAAGCCCTTATTCCTCCAGCA
genomic: AGGGAGAGGGGGTTTGCTATTTAAGgtatgcaaaa ... gattgtttagGTTCCTGAAGCCCTTATTCCTCCAGCA
EST: gi|71449703|gb|DR830753.1|DR830753
EST:     AGGGAGAGGGGGTTTGCTATTTAAG                         GTTCCTGAAGCCCTTATTCCTCCAGCAGGGGCTCGTGTTATGTCCCTAACT
genomic: AGGGAGAGGGGGTTTGCTATTTAAGgtatgcaaaa ... gattgtttagGTTCCTGAAGCCCTTATTCCTCCAGCAGGGGCTCGTGTTATGTCCCTAACT
EST: gi|32930432|gb|CF035244.1|CF035244
EST:     AGGGAGAGGGGGTTTGCTATTTAAG                         GTTCCTGAAGCCCTTATTCCTCCAGCAGGGGCTCGTGTTATGTCCCTAACT
genomic: AGGGAGAGGGGGTTTGCTATTTAAGgtatgcaaaa ... gattgtttagGTTCCTGAAGCCCTTATTCCTCCAGCAGGGGCTCGTGTTATGTCCCTAACT
EST: gi|32930572|gb|CF035384.1|CF035384
EST:     AGGGAGAGGGGGTTTGCTATTTAAG                         GTTCCTGAAGCCCTTATTCCTCCAGCAGGGGCTCGTGTTATGTCCCTAACT
genomic: AGGGAGAGGGGGTTTGCTATTTAAGgtatgcaaaa ... gattgtttagGTTCCTGAAGCCCTTATTCCTCCAGCAGGGGCTCGTGTTATGTCCCTAACT
EST: gi|78120427|gb|DV538811.1|DV538811
EST:     GGAGAGGGGGTTTGCTATTTAAG                         GTTCCTGAAGCCCTTATTCCTCCAGCAGGGGCTCGTGTTATGTCCCTAACT
genomic: GGAGAGGGGGTTTGCTATTTAAGgtatgcaaaa ... gattgtttagGTTCCTGAAGCCCTTATTCCTCCAGCAGGGGCTCGTGTTATGTCCCTAACT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctaagttatctatactatacttagattagagtaccttctggtttgattgtttagGTTCCTGAAGCCCTTATTCCTCCAGCAGGGGCTCGTGTTATGTCCCTAACTGATGGTCTCTCCAAG
                                         gtttgat  putative branch site (score: 5)
      ttatctatactata  TA-rich tract