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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgggcatatggcagtgtacttttctacatcttttgaatgaattgctaccaacctggaactaatccagtggctcgcttgaatagGTGTCATGATCTGGTTGCTAGCAATCATCTACTTCATCTCTGGTGTCCCTGGGGCCTATGTGCTTTGGTATCGCCCGCTTTACAATGCGATGAG

Basic information

species Zea mays
transcript GRMZM2G169773_T01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G169773_T02 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os01g57220.2 (Oryza sativa), 3'ss of exon 6
gtatgggcatatg-gcagtgtacttt-tctacatcttttgaatgaattgctacca--------acctggaactaatccagtggctcgcttgaatagGTGTCATGATCTGGTTGCTAGCAATCATCTACTTCATCTCTGGTGTCCCTGGGGCCTATGTGCTTTGGTATCGCCCGCTTTACAATGCGATGAG
||||||     || | |   |||| | | |  ||||| || || |  ||| | |         || |  ||||||||| | || ||  || ||||||||| ||||||||||||||||| || |||||||| || |||||||| ||||| ||||||||| | ||||||||||| |||||||||||||||||
gtatggctgactgagtaccttactatatatttatcttatggatcagctgccatctgcactgacacttcaaactaatcctgcggttcaattcaatagGTGTTATGATCTGGTTGCTAGCCATTATCTACTTTATATCTGGTGTACCTGGAGCCTATGTGTTATGGTATCGCCCCCTTTACAATGCGATGAG
















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|148980186|gb|EE026996.2|EE026996
EST:     CCTCTTTTGGAACATCATTGCAACTACAGCAGCATGGATTAAATCAGAAG                         GTGTCATGATCTGGTTGCTAGCAATCATCTACTTCATCTCTGGTGTCCCTG
genomic: CCTCTTTTGGAACATCATTGCAACTACAGCAGCATGGATTAAATCAGAAGgtatgggcat ... gcttgaatagGTGTCATGATCTGGTTGCTAGCAATCATCTACTTCATCTCTGGTGTCCCTG
EST: gi|211370168|gb|FL333601.1|FL333601
EST:     CCTCTTTTGGAACATCATTGCAACTACAGCAGCATGGATTAAATCAGAAG                         GTGTCATGATCTGGTTGCTA
genomic: CCTCTTTTGGAACATCATTGCAACTACAGCAGCATGGATTAAATCAGAAGgtatgggcat ... gcttgaatagGTGTCATGATCTGGTTGCTA
EST: gi|71449251|gb|DR830301.1|DR830301
EST:     CCTCTTTTGGAACATCATTGCAACTACAGCAGCATGGATTAAATCAGAAG                         GTGTCATGATCTGGTTGCTAGCAATCATCTACTTCATCTCTGGTGTCCCTG
genomic: CCTCTTTTGGAACATCATTGCAACTACAGCAGCATGGATTAAATCAGAAGgtatgggcat ... gcttgaatagGTGTCATGATCTGGTTGCTAGCAATCATCTACTTCATCTCTGGTGTCCCTG
EST: gi|78077114|gb|DV505548.1|DV505548
EST:     CCTCTTTTGGAACATCATTGCAACTACAGCAGCATGGATTAAATCAGAAG                         GTGTCATGATCTGGTTGCTAGCAATCATCTACTTCATCTCTGGTGTCCCTG
genomic: CCTCTTTTGGAACATCATTGCAACTACAGCAGCATGGATTAAATCAGAAGgtatgggcat ... gcttgaatagGTGTCATGATCTGGTTGCTAGCAATCATCTACTTCATCTCTGGTGTCCCTG
EST: gi|78115059|gb|DV533447.1|DV533447
EST:     CCTCTTTTGGAACATCATTGCAACTACAGCAGCATGGATTAAATCAGAAG                         GTGTCATGATCTGGTTGCTAGCAATCATCTACTTCATCTCTGGTGTCCCTG
genomic: CCTCTTTTGGAACATCATTGCAACTACAGCAGCATGGATTAAATCAGAAGgtatgggcat ... gcttgaatagGTGTCATGATCTGGTTGCTAGCAATCATCTACTTCATCTCTGGTGTCCCTG
EST: gi|71429331|gb|DR810381.1|DR810381
EST:     CCTCTTTTGGAACATCATTGCAACTACAGCAGCATGGATTAAATCAGAAG                         GTGTCATGATCTGGTTGCTAGCAATCATCTACTTCATCTCTGGTGTCCCTG
genomic: CCTCTTTTGGAACATCATTGCAACTACAGCAGCATGGATTAAATCAGAAGgtatgggcat ... gcttgaatagGTGTCATGATCTGGTTGCTAGCAATCATCTACTTCATCTCTGGTGTCCCTG
EST: gi|211146797|gb|FL347631.1|FL347631
EST:     CCTCTTTTGGA-CATCATTGCAACTACAGCAGCATGGATTAAATCAGAAG                         GTGTCATGATCTGGTTGCTAGC
genomic: CCTCTTTTGGAACATCATTGCAACTACAGCAGCATGGATTAAATCAGAAGgtatgggcat ... gcttgaatagGTGTCATGATCTGGTTGCTAGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcttttgaatgaattgctaccaacctggaactaatccagtggctcgcttgaatagGTGTCATGATCTGGTTGCTAGCAATCATCTACTTCATCTCTGGTGTCCCTGGGGCCTATGTGCTTTGGTATCGCCCGCTTTACAATGCGATGAG
                            aactaat  putative branch site (score: 2)
                                          ctcgctt  putative PPT
       aatgaatt  TA-rich tract