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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaggttcctgtttgagataatgggataatgaaaagtgaatcatgcattgcttaattagaaactgggtattctgtttttcctctgtcagGTATTTGATACGCTCAGGATAATTATGGTTGTATTGGGCATGACATTTGTCTTTGTTGGGATCTCCTTGCTAGCACCCGATGACACTAAAG

Basic information

species Zea mays
transcript GRMZM2G144254_T04
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G144254_T06 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os02g31874.2 (Oryza sativa), 3'ss of exon 10
gtaggttcctgtttg-agataatgggataatgaaaagtgaatcatgcattgcttaattagaaactgggtattctgtttttcctctgtcagGTATTTGATACGCTCAGGATAATTATGGTTGTATTGGGCATGACATTTGTCTTTGTTGGGATCTCCTTGCTAGCACCCGATGACACTAAAG
||  ||| ||||||| | ||| |    |||  |  ||  |||| ||  ||||| | | | |||||  |  || ||  || |||   | ||||||||||||| || |||||| | ||| |||||||||||||||||| ||||||| | || |||||||| || |||||||| |||| |||||
gtgagtttctgtttgtaaatattatcgtaagcatgag--aatcttgtgttgctca-tgataaactaagggttttggattgccttcattagGTATTTGATACCCTGAGGATAGTGATGTTTGTATTGGGCATGACATCTGTCTTTATAGGCATCTCCTTACTGGCACCCGACGACAGTAAAG
















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|78022546|gb|DV490933.1|DV490933
EST:     GGACCTTCTTCTCTATCTGTACAGGATTTGTTTACTTTCAAGAATATCAA                         GTATTTGATACGCTCAGGATAATTATGGTTGTATTGGGCATGACATTTGTC
genomic: GGACCTTCTTCTCTATCTGTACAGGATTTGTTTACTTTCAAGAATATCAAgtaggttcct ... cctctgtcagGTATTTGATACGCTCAGGATAATTATGGTTGTATTGGGCATGACATTTGTC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agtgaatcatgcattgcttaattagaaactgggtattctgtttttcctctgtcagGTATTTGATACGCTCAGGATAATTATGGTTGTATTGGGCATGACATTTGTCTTTGTTGGGATCTCCTTGCTAGCACCCGATGACACTAAAG
               gcttaat  putative branch site (score: 4)
                                   ttctgtttttcctctg  putative PPT
                 ttaattagaaa  TA-rich tract