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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaggaaaactctggtcattttggaatccaagttaatgttgaattatgtgttaagtctcacaactccccttttgaccagCACTGTCGAGTGGGTTACCGAATAGAGGACTAAGCAACGGTACATATGAATATAGTAGGCGTGTATTTGGTTCTGTTCTGAATGATGTTAGCCGTCGAGC

Basic information

species Zea mays
transcript GRMZM2G175676_T05
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G175676_T05 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os05g35274.2 (Oryza sativa), 3'ss of exon 4
gtgaggaaaactc--tggtcattttggaatccaagttaatgttgaattatgtgttaagtctcacaactccccttt--tgaccagCACTGTCGAGTGGGTTACCGAATAGAGGACTAAGCAACGGTACATATGAATATAGTAGGCGTGTATTTGGTTCTGTTCTGAATGATGTTAGCCGTCGAGC---
|||||  |   ||  |  || |||   |||  |||  | |||    || |   |||| ||| |||| |||| |||  || |||||||   | |||||| || ||| ||||||| ||||||| |||||||| ||||||||||| || ||||||||||||||||||||||| |||||||||||  |   
gtgagagagtttccttattcctttcaaaatataagacactgtatggtttttaattaaatcttacaattcccttttcttgtccagCAC---CAAGTGGGATATCGAGTAGAGGATTAAGCAATGGTACATACGAATATAGTAGACGCGTATTTGGTTCTGTTCTGAATGACGTTAGCCGTCGTACTGA
















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|211009129|gb|FL298875.1|FL298875
EST:     TGCCGGGTATGGTATCCCACCAAATCATTCATACGACACGCACACTCAAG                         CACTGTCGAGTGGGTTACCGAATAGAGGACTAAGCAACGGTACATATGAAT
genomic: TGCCGGGTATGGTATCCCACCAAATCATTCATACGACACGCACACTCAAGgtgaggaaaa ... ttttgaccagCACTGTCGAGTGGGTTACCGAATAGAGGACTAAGCAACGGTACATATGAAT
EST: gi|211006359|gb|FL298865.1|FL298865
EST:     TGCCGGGTATGGTATCCCACCAAATCATTCATACGACACGCACACTCAAG                         CACTGTCGAGTGGGTTACCGAATAGAGGACTAAGCAACGGTACGTATGAAT
genomic: TGCCGGGTATGGTATCCCACCAAATCATTCATACGACACGCACACTCAAGgtgaggaaaa ... ttttgaccagCACTGTCGAGTGGGTTACCGAATAGAGGACTAAGCAACGGTACATATGAAT
EST: gi|60672590|gb|DN475291.1|DN475291
EST:     TGCCGGGTATGGTATCCCACCAAATCATTCATACGACACGCACACTCAAG                         CACTGTCGAGTGGGTTACCGAATAGAGGACTAAGCAACGGTACATATGAAT
genomic: TGCCGGGTATGGTATCCCACCAAATCATTCATACGACACGCACACTCAAGgtgaggaaaa ... ttttgaccagCACTGTCGAGTGGGTTACCGAATAGAGGACTAAGCAACGGTACATATGAAT
EST: gi|60339325|gb|DN206298.1|DN206298
EST:     GTATCCCACCAAATCATTCATACGACACGCACACTCAAG                         CACTGTCGAGTGGGTTACCGAATAGAGGACTAAGCAACGGTACATATGAAT
genomic: GTATCCCACCAAATCATTCATACGACACGCACACTCAAGgtgaggaaaa ... ttttgaccagCACTGTCGAGTGGGTTACCGAATAGAGGACTAAGCAACGGTACATATGAAT
EST: gi|32854471|gb|CD994152.1|CD994152
EST:     TGCCGGGTATGGTATCCCACCAAATCATTCATACGACACGCACACTCAAG                         CACTGTCGAGTGGGTTACCGAATAGAGGACTAAGCAAC
genomic: TGCCGGGTATGGTATCCCACCAAATCATTCATACGACACGCACACTCAAGgtgaggaaaa ... ttttgaccagCACTGTCGAGTGGGTTACCGAATAGAGGACTAAGCAAC
EST: gi|60355014|gb|DN221987.1|DN221987
EST:     TGCCGGGTATGGTATCCCACCAAATCATTCATACGACACGCACACTCAAG                         CACTGTCGAGTGGGTTACCGAATAGAGGACTAAGCAACGGTACATATGAAT
genomic: TGCCGGGTATGGTATCCCACCAAATCATTCATACGACACGCACACTCAAGgtgaggaaaa ... ttttgaccagCACTGTCGAGTGGGTTACCGAATAGAGGACTAAGCAACGGTACATATGAAT
EST: gi|211006349|gb|FL298855.1|FL298855
EST:     GCCGGGTATGGTATCCCACCAAATCATTCATACGACACGCACACTNCAAG                         CACTGTCGAGTGGGTTACCGAATAGANGGAACTA-GCACCG-TACATATG
genomic: GCCGGGTATGGTATCCCACCAAATCATTCATACGACACGCACACT-CAAGgtgaggaaaa ... ttttgaccagCACTGTCGAGTGGGTTACCGAATAGA-GGA-CTAAGCAACGGTACATATG
EST: gi|211003566|gb|FL298843.1|FL298843
EST:     TGCCGGGTATGGTATCCCACCAAATCATTCATACGACACGCACACTCAAG                         CACTGTCGAGTGGGTTACCGAATAGAGGACTAAGCAACGGTACATATGAAT
genomic: TGCCGGGTATGGTATCCCACCAAATCATTCATACGACACGCACACTCAAGgtgaggaaaa ... ttttgaccagCACTGTCGAGTGGGTTACCGAATAGAGGACTAAGCAACGGTACATATGAAT
EST: gi|32862735|gb|CF002417.1|CF002417
EST:     TGCCGGGTATGGTATCCCACCAAATCATTCATACGACACGCACACTCAAG                         CACTGTCGAGTGGGTTACCGAATAGAGGACTAAGCAACGGTACATATGAAT
genomic: TGCCGGGTATGGTATCCCACCAAATCATTCATACGACACGCACACTCAAGgtgaggaaaa ... ttttgaccagCACTGTCGAGTGGGTTACCGAATAGAGGACTAAGCAACGGTACATATGAAT
EST: gi|60345015|gb|DN211988.1|DN211988
EST:     TGCCGGGTATGGTATCCCACCAAATCATTCATACGACACGCACACTCAAG                         CACTGTCGAGTGGGTTACCGAATAGAGGACTAAGCAACGGTACATATGAAT
genomic: TGCCGGGTATGGTATCCCACCAAATCATTCATACGACACGCACACTCAAGgtgaggaaaa ... ttttgaccagCACTGTCGAGTGGGTTACCGAATAGAGGACTAAGCAACGGTACATATGAAT
EST: gi|31558437|gb|CD527649.1|CD527649
EST:     TGCCGGGTATGGTATCCCACCAAATCATTCATACGACACGCACACTCAAG                         CACTGTCGAGTGGGTTACCGAATAGAGGACTAAGCAACGGTACATATGAAT
genomic: TGCCGGGTATGGTATCCCACCAAATCATTCATACGACACGCACACTCAAGgtgaggaaaa ... ttttgaccagCACTGTCGAGTGGGTTACCGAATAGAGGACTAAGCAACGGTACATATGAAT
EST: gi|76285730|gb|DV025298.1|DV025298
EST:     TGCCGGGTATGGTATCCCACCAAATCATTCATACGACACGCACACTCAAG                         CACTGTCGAGTGGGTTACCGAATAGAGGACTAAGCAACGGTACATATGAAT
genomic: TGCCGGGTATGGTATCCCACCAAATCATTCATACGACACGCACACTCAAGgtgaggaaaa ... ttttgaccagCACTGTCGAGTGGGTTACCGAATAGAGGACTAAGCAACGGTACATATGAAT
EST: gi|161585690|gb|EY953332.1|EY953332
EST:     CGGGTATGGTATCCCACCAAATCATTCATACGACACGCACACTCAAG                         CACTGTCGAGTGGGTTACCGAATAGAGGACTAAGCAACGGTACGTATGAAT
genomic: CGGGTATGGTATCCCACCAAATCATTCATACGACACGCACACTCAAGgtgaggaaaa ... ttttgaccagCACTGTCGAGTGGGTTACCGAATAGAGGACTAAGCAACGGTACATATGAAT
EST: gi|211003574|gb|FL298851.1|FL298851
EST:     TGCCGGGTATGGTATCCCACCAAATCATTCATACGACACGCACACTCAAG                         CACTGTCGAGTGGGTTACCGAATAGNAG-ACTAAGNCA-CGGTACATATGA
genomic: TGCCGGGTATGGTATCCCACCAAATCATTCATACGACACGCACACTCAAGgtgaggaaaa ... ttttgaccagCACTGTCGAGTGGGTTACCGAATAG-AGGACTAAG-CAACGGTACATATGA
EST: gi|71445511|gb|DR826561.1|DR826561
EST:     TGCCGGGTATGGTATCCCACCAAATCATTCATACGACACGCACACTCAAG                         CACTGTCGAGTGGGTTACCGAATAGAGGACTAAGCAACGGTACATATGAAT
genomic: TGCCGGGTATGGTATCCCACCAAATCATTCATACGACACGCACACTCAAGgtgaggaaaa ... ttttgaccagCACTGTCGAGTGGGTTACCGAATAGAGGACTAAGCAACGGTACATATGAAT
EST: gi|211003568|gb|FL298845.1|FL298845
EST:     TGCCGGGTATGGTATCCCACCAAATCATTCATACGACACGCACACTCAAG                         CACTGTCGAGTGGGTTACCGAATAGAGGACTAAGCAACGGTACATATGAAT
genomic: TGCCGGGTATGGTATCCCACCAAATCATTCATACGACACGCACACTCAAGgtgaggaaaa ... ttttgaccagCACTGTCGAGTGGGTTACCGAATAGAGGACTAAGCAACGGTACATATGAAT
EST: gi|76911783|gb|DV164430.1|DV164430
EST:     TGCCGGGTATGGTATCCCACCAAATCATTCATACGACACGCACACTCAAG                         CACTGTCGAGTGGGTTACCGAATAGAGGACTAAGCAACGGTACATATGAAT
genomic: TGCCGGGTATGGTATCCCACCAAATCATTCATACGACACGCACACTCAAGgtgaggaaaa ... ttttgaccagCACTGTCGAGTGGGTTACCGAATAGAGGACTAAGCAACGGTACATATGAAT
EST: gi|211006354|gb|FL298860.1|FL298860
EST:     TGCCGGGTATGGTATCCCACCAAATCATTCATACGACACGCACACTCAAG                         CACTGTCGAGTGGGTTACCGAATAGAGGACTAAGCAACGGTACATATGAAT
genomic: TGCCGGGTATGGTATCCCACCAAATCATTCATACGACACGCACACTCAAGgtgaggaaaa ... ttttgaccagCACTGTCGAGTGGGTTACCGAATAGAGGACTAAGCAACGGTACATATGAAT
EST: gi|211003577|gb|FL298854.1|FL298854
EST:     TGCCGGGTATGGTATCCCACCAAATCATTCATACGACACGCACACTCAAG                         CACTGTCGAGTGGGTTACCGAATAGAGGACTAAGCAACGGTACATATGAAT
genomic: TGCCGGGTATGGTATCCCACCAAATCATTCATACGACACGCACACTCAAGgtgaggaaaa ... ttttgaccagCACTGTCGAGTGGGTTACCGAATAGAGGACTAAGCAACGGTACATATGAAT
EST: gi|211003575|gb|FL298852.1|FL298852
EST:     TGCCGGGTATAGTATCCCACCAAATCATTCATACGACACGCACACTCAAG                         CACTGTCGAGTGGGTTAC
genomic: TGCCGGGTATGGTATCCCACCAAATCATTCATACGACACGCACACTCAAGgtgaggaaaa ... ttttgaccagCACTGTCGAGTGGGTTAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatccaagttaatgttgaattatgtgttaagtctcacaactccccttttgaccagCACTGTCGAGTGGGTTACCGAATAGAGGACTAAGCAACGGTACATATGAATATAGTAGGCGTGTATTTGGTTCTGTTCTGAATGATGTTAGCCGTCGAGC
                              gtctcac  putative branch site (score: 3)
                                       ctccccttttgacc  putative PPT
        ttaatgttgaattat  TA-rich tract