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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtgatatatatgcttctttgtagaaaatatttgtttcctgttttcgcagctagccctgttttatactatatgtttttgagtttagtaattaattcctcggagtgcaatgatattgtttccagGCAAAACAAGGTACTGGTGAACCAGCTGAGTCAACCAGAGCCAGGAACATCAGATCTTTATTTCCCTACAGAGTACTCGCAATCCACAATAGGACAGTTC

Basic information

species Zea mays
transcript GRMZM2G029506_T01
intron # 18
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G029506_T01 (Zea mays), 3'ss of exon 18
lower sequence: LOC_Os06g36090.2 (Oryza sativa), 3'ss of exon 14
gtaagtgatatatatgcttctttgtagaaaatatttgtttcctgttttcgcagctagccctgttttatactatatgtttttgagtttagta-attaattc-ctcggagtgcaatgatattgtttccagGCAAAACAAGGTACTGGTGAACCAGCTGAGTCAACCAGAGCCAGGAACATCAGATCTTTATTTCCCTACAGAGTACTCGCAATCCACAATAGGACAGTTC
                    |  |   || || ||| |||| | |  |   |        | |||  |  || | ||||||   | | ||   | ||||| |  ||| |  |  |    ||||| |||||||||||||||| ||||||| ||||| |||||||||||||||||||||||||||||  |||| |||||| | ||||| |||||||| ||||| || || 
-------------------gtaagcgaaacatttttttttcttctacttttaaactcttatctttcttcttaaa-gtttttagttgttgtgtgtcaattctcatggaatagatgggccgtgttttcagGCAAAACAAGGTATTGGTGAATCAGCTAAGTCAACCAGAGCCAGGAACATCAGATCTGCATTTTCCTACAAAATACTCTCAATCCACCATAGGGCAATTT
















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|120481344|gb|EH211263.1|EH211263
EST:     CGACTAAAGATGGATTTTGCTAAGTACTATGAAACATCAGATCTGTATAA                         GCAAAACAAGGTACTGGTGAACCAGCTGAGTCAACCAGAGCCAGGAACATC
genomic: CGACTAAAGATGGATTTTGCTAAGTACTATGAAACATCAGATCTGTATAAgtaagtgata ... ttgtttccagGCAAAACAAGGTACTGGTGAACCAGCTGAGTCAACCAGAGCCAGGAACATC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atatgtttttgagtttagtaattaattcctcggagtgcaatgatattgtttccagGCAAAACAAGGTACTGGTGAACCAGCTGAGTCAACCAGAGCCAGGAACATCAGATCTTTATTTCCCTACAGAGTACTCGCAATCCACAATAGGACAGTTC
                   aattaat  putative branch site (score: 3)
                                             ttgtttcc  putative PPT
     tttttgagtttagtaa  TA-rich tract