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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_T03
intron # 8
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|76012104|gb|DT939274.1|DT939274
EST:     CAATTCATTTATACTTTTTGATTGGCAGGAGAGGGGGTTTGCTATTTAAG                         GTTCCTGAAGCCCTTATTCCTCCAGCAGGGGCTCGTGTTATGTCCCTAACT
genomic: CAATTCATTTATACTTTTTGATTGGCAGGAGAGGGGGTTTGCTATTTAAGgtatgcaaaa ... 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