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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtttgagcttttgaccaactttttagttctttgaactctgcgcttgcaacattattggtatactatcttactgacattgtgacatcttctaccatgctagGTCATTTTGGATTCACACTGTTGGGTTCCGATGCCATCTGTTGGTTTTGTAGCAAATGGTGTTGTCGATGAGACTTCTGATGATGTGACTCCACCTTCCG

Basic information

species Zea mays
transcript GRMZM2G006781_T03
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G006781_T03 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os12g35290.1 (Oryza sativa), 3'ss of exon 9
---gtttgagcttttgaccaactttttagttctttgaac-tctgcgcttgcaacattattggtatactatcttactgacattgtgacatcttctaccatgctagGTCATTTTGGATTCACACTGTTGGGTTCCGATGCCATCTGTTGGTTTTGTAGCAAATGGTGTTGTCGATGAGACTTCTGATGATGTGACTCCACCTTCCG
     ||    |||| | |     |  |  | ||  ||  |||   ||| |    ||  |   | | ||| ||| |  ||   |   | |||||| |||| |||||  || ||||||||||  |||||||||| |||||||||||||| |||||||| ||||| ||||| ||||||||||||||||||||||| || ||||| |
tttacttagtgttttcagctgtagtccacattttcaaatgtctatactttc----ttcctcaaacattattttaatttcaccattttaccttctatcatgttagGTTGTTCTGGATTCACATCGTTGGGTTCCAATGCCATCTGTTGGCTTTGTAGCGAATGGAGTTGTGGATGAGACTTCTGATGATGTGACGCCGCCTTCTG
















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|32837856|gb|CD977534.1|CD977534
EST:     ACGGCGGTCGAAAATTTTCAG                         GTCATTTTGGATTCACACTGTTGGGTTCCGATGCCATCTGTTGGTTTTGTA
genomic: ACGGCGGTCGAAAATTTTCAGgtaacacagt ... accatgctagGTCATTTTGGATTCACACTGTTGGGTTCCGATGCCATCTGTTGGTTTTGTA
EST: gi|32839358|gb|CD979039.1|CD979039
EST:     ACGGCGGTCGAAAATTTTCAG                         GTCATTTTGGATTCACACTGTTGGGTTCCGATGCCATCTGTTGGTTTTGTA
genomic: ACGGCGGTCGAAAATTTTCAGgtaacacagt ... accatgctagGTCATTTTGGATTCACACTGTTGGGTTCCGATGCCATCTGTTGGTTTTGTA
EST: gi|32836515|gb|CD976193.1|CD976193
EST:     ACGGCGGTCGAAAATTTTCAG                         GTCATTTTGGATTCACACTGTTGGGTTCCGATGCCATCTGTTGGTTTTGTA
genomic: ACGGCGGTCGAAAATTTTCAGgtaacacagt ... accatgctagGTCATTTTGGATTCACACTGTTGGGTTCCGATGCCATCTGTTGGTTTTGTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcaacattattggtatactatcttactgacattgtgacatcttctaccatgctagGTCATTTTGGATTCACACTGTTGGGTTCCGATGCCATCTGTTGGTTTTGTAGCAAATGGTGTTGTCGATGAGACTTCTGATGATGTGACTCCACCTTCCG
                       tactgac  putative branch site (score: 1)
                                       tcttctacc  putative PPT
             tatactat  TA-rich tract