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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacatgagataaatcctactaatttacgcatacatacgcatgcagttatccaaactcttacgttagagcttattttatctaaccagGGCACTTTGTGTTGTATGGACAACCCCCCTAGTGGCCACTTTGGGCATGTCACTCACCATTCCTCTTGCTATGTTGGCTGACATGGTGATCCATGGCCGG

Basic information

species Glycine max
transcript GLYMA14G14010.2
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA14G14010.2 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os04g55260.1 (Oryza sativa), 3'ss of exon 6
gtacatga-gataaatcctactaatttacgcatacatacgcatgcagttatccaaactcttacgttagagcttattttatctaaccagGGCACTTTGTGTTGTATGGACAACCCCCCTAGTGGCCACTTTGGGCATGTCACTCACCATTCCTCTTGCTATGTTGGCTGACATGGTGATCCATGGCCGG
||||     ||  ||   ||  | |||    |||     || |  |||| | | |  | | || |  ||||||       ||   |||||| |||| |||||| ||||| || ||  | |||||||| ||||||||||||||||| ||||| || || ||| ||||||| ||| | || ||||| || 
gtacgcactgaccaaggataacatttttattatattgttgcct--agttgtgctatttttgacat-ggagctt-------ctggtcagGGCTCTTTCTGTTGTTTGGACTACTCCTTTGGTGGCCACCTTGGGCATGTCACTCACAATTCCACTAGCAATGGTGGCTGATATGATCATTCATGGTCGT

upper sequence: GLYMA14G14010.2 (Glycine max), 3'ss of exon 5
lower sequence: Vv04s0008g06500.t01 (Vitis vinifera), 3'ss of exon 6
gtacatgagataaatccta-ctaatttacgcatacatacgcatgcagttatccaaactcttac-gttagagcttattttatctaaccagGGCACTTTGTGTTGTATGGACAACCCCCCTAGTGGCCACTTTGGGCATGTCACTCACCATTCCTCTTGCTATGTTGGCTGACATGGTGATCCATGGCCGG
||| | || | ||  | |  ||  || | || |   || | || ||  ||||    |||||      |    ||   |  |||    |||||| | |||||||| |||||||| || || || ||||| ||||||||||| ||||| || || ||||||||| | ||||||||| |||||||||| |||
gtataggaaacaatccttctctgcttgatgctt---tatgtatccacatatcttttctcttcttaacatgaatttcctattctctttagGGCATTGTGTGTTGTTTGGACAACTCCACTGGTTGCCACCTTGGGCATGTCTCTCACTATCCCACTTGCTATGGTAGCTGACATGATGATCCATGGTCGG
















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|192333218|gb|FK026099.1|FK026099
EST:     GTGGTTCTTGCCAATGGATTTGTTGGTAGTGTTCTCTCAGACTACTTCTG                         GGCACTTTGTGTTGTATGGACAACCCCCCTAGTGGCCACTTTGGGCATGTC
genomic: GTGGTTCTTGCCAATGGATTTGTTGGTAGTGTTCTCTCAGACTACTTCTGgtacatgaga ... atctaaccagGGCACTTTGTGTTGTATGGACAACCCCCCTAGTGGCCACTTTGGGCATGTC
EST: gi|51336606|gb|CO980472.1|CO980472
EST:     GTGGTTCTTGCCAATGGATTTGTTGGTAGTGTTCTCTCAGACTACTTCTG                         GGCACTTTGTGTTGTATGGACAACCCCCCTAGTGGCCACTTTGGGCATGTC
genomic: GTGGTTCTTGCCAATGGATTTGTTGGTAGTGTTCTCTCAGACTACTTCTGgtacatgaga ... atctaaccagGGCACTTTGTGTTGTATGGACAACCCCCCTAGTGGCCACTTTGGGCATGTC
EST: gi|14990253|gb|BI315926.1|BI315926
EST:     GTGGTTCTTGCCAATGGATTTGTTGGTAGTGTTCTCTCAGACTACTTCTG                         GGCACTTTGTGTTGTATGGACAACCCCCCTAGTGGCCACTTTGGGCATGTC
genomic: GTGGTTCTTGCCAATGGATTTGTTGGTAGTGTTCTCTCAGACTACTTCTGgtacatgaga ... atctaaccagGGCACTTTGTGTTGTATGGACAACCCCCCTAGTGGCCACTTTGGGCATGTC
EST: gi|254326133|gb|GR840725.1|GR840725
EST:     GTGGTTCTTGCCAATGGATTTGTTGGTAGTGTTCTCTCAGACTACTTCTG                         GGCACTTTGTGTTGTATGGACAACCCCCCTAGTGGCCACTTTGGGCATGTC
genomic: GTGGTTCTTGCCAATGGATTTGTTGGTAGTGTTCTCTCAGACTACTTCTGgtacatgaga ... atctaaccagGGCACTTTGTGTTGTATGGACAACCCCCCTAGTGGCCACTTTGGGCATGTC
EST: gi|31473999|gb|CD416027.1|CD416027
EST:     GTGGTTCTTGCCAATGGATTTGTTGGTAGTGTTCTCTCAGACTACTTCTG                         GGCACTTTGTGTTGTATGGACAACCCCCCTAGTGGCCACTTTGGGCATGTC
genomic: GTGGTTCTTGCCAATGGATTTGTTGGTAGTGTTCTCTCAGACTACTTCTGgtacatgaga ... atctaaccagGGCACTTTGTGTTGTATGGACAACCCCCCTAGTGGCCACTTTGGGCATGTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acatacgcatgcagttatccaaactcttacgttagagcttattttatctaaccagGGCACTTTGTGTTGTATGGACAACCCCCCTAGTGGCCACTTTGGGCATGTCACTCACCATTCCTCTTGCTATGTTGGCTGACATGGTGATCCATGGCCGG
                       ctcttac  putative branch site (score: 3)
                                         ttttatct  putative PPT
                                      ttattttatctaa  TA-rich tract