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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgttaggaacatattaaataattcacctcatcatcaacatcaacagtcacccctatctttctgatatatgtaacctataacactgcagCCCATGTATTTCATCGTGATTTAAAGCCCAGGAACATACTGGCCAATTCAGACAGCAAACTAAAGATCTGCGACTTTGGACTTGCACGTGCATCATTTAA

Basic information

species Zea mays
transcript GRMZM2G374088_T01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G374088_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os02g04230.1 (Oryza sativa), 3'ss of exon 2
----------------------------------------------gtttgttaggaacatat-taaataattcacctcatcatcaacatcaacagtcacccctatctttctgatatatgtaacctataacactgcagCCCATGTATTTCATCGTGATTTAAAGCCCAGGAACATACTGGCCAATTCAGACAGCAAACTAAAGATCTGCGACTTTGGACTTGCACGTGCATCATTTAA
                                               ||  ||   ||  | | ||  |  |  |  | ||  |  | | ||  | |||   ||   |||||||||||||     ||        ||||  |||||||||||||||| |||||||| | |||||||||||||||||||||| ||||||| ||||| || || |||||||||||||||| | |||||||
gttagtgatgaaattagcatctaattaaccttgtcaccaacagccacttcattccaaatctgtatactttgtggaagttatatttca-accattaatcattactgagtttctgatatatg--gtttaacttgtctcagCTAATGTATTTCATCGTGACTTAAAGCCAAAGAACATACTGGCCAATTCAGACTGCAAACTGAAGATTTGTGATTTTGGACTTGCACGTGTAGCATTTAA
















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|19351123|gb|BM895655.1|BM895655
EST:     CCGCTTTTTCCTGTATCAACTTATTCGTGCTCTCAAGTACATGCATTCAG                         CCCATGTATTTCATCGTGATTTAAAGCCCAGGAACATACT
genomic: CCGCTTTTTCCTGTATCAACTTATTCGTGCTCTCAAGTACATGCATTCAGgtttgttagg ... aacactgcagCCCATGTATTTCATCGTGATTTAAAGCCCAGGAACATACT
EST: gi|148931406|gb|EC874345.2|EC874345
EST:     CCGCTTTTTCCTGTATCAACTTATTCGTGCTCTCAAGTACATGCATTCAG                         CCCATGTATTTCATCGTGATTTAAAGCCCAGGAACATACTGGCCAATTCAG
genomic: CCGCTTTTTCCTGTATCAACTTATTCGTGCTCTCAAGTACATGCATTCAGgtttgttagg ... aacactgcagCCCATGTATTTCATCGTGATTTAAAGCCCAGGAACATACTGGCCAATTCAG
EST: gi|89106234|gb|DY576451.1|DY576451
EST:     CCGCTTTTTCCTGTATCAACTTATTCGTGCTCTCAAGTACATGCATTCAG                         CCCATGTATTTCATCGTGATTTAAAGCCCAGGAACATACTGGCCAATTCAG
genomic: CCGCTTTTTCCTGTATCAACTTATTCGTGCTCTCAAGTACATGCATTCAGgtttgttagg ... aacactgcagCCCATGTATTTCATCGTGATTTAAAGCCCAGGAACATACTGGCCAATTCAG
EST: gi|19436216|gb|BM952626.1|BM952626
EST:     CCGCTTTTTCCTGTATCAACTTATTCGGGCTCTCAAGTACATGCATTCAG                         CCCATGTATTTCATCGGGATTTAAAGCCCAGGAACATACTGGCCAATTCAG
genomic: CCGCTTTTTCCTGTATCAACTTATTCGTGCTCTCAAGTACATGCATTCAGgtttgttagg ... aacactgcagCCCATGTATTTCATCGTGATTTAAAGCCCAGGAACATACTGGCCAATTCAG
EST: gi|22491462|gb|BU051385.1|BU051385
EST:     CCGCTTTTTCCTGTATCAACTTATTCGTGCTCTCAAGTACATGCATTCAG                         CCCATGTATTTCATCGTGATTTAAAGCCCAGGAACATACTGGCCAATTCAG
genomic: CCGCTTTTTCCTGTATCAACTTATTCGTGCTCTCAAGTACATGCATTCAGgtttgttagg ... aacactgcagCCCATGTATTTCATCGTGATTTAAAGCCCAGGAACATACTGGCCAATTCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcaacatcaacagtcacccctatctttctgatatatgtaacctataacactgcagCCCATGTATTTCATCGTGATTTAAAGCCCAGGAACATACTGGCCAATTCAGACAGCAAACTAAAGATCTGCGACTTTGGACTTGCACGTGCATCATTTAA
                                         ctataac  putative branch site (score: 3)
                              atatatgtaa  TA-rich tract