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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgctgatccccttacatacagtattagtgtgtttaataattaggctcatgcatttctgttcatgttgaattctgattggtgtttactgttcttttttggtaaaaagCTAGCTTCAATGGAATCGGTCCGTGGAGTTAATGTTCCTATGTATACAACTCTACGGCGCACGACAGTTGTGTTTACAATGACAATGGAGTATTTCCTGG

Basic information

species Zea mays
transcript GRMZM2G133226_T03
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G133226_T03 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os02g40030.2 (Oryza sativa), 3'ss of exon 3
gtatgctgatccccttacatacagtattagtgtgtttaataattaggctcatgcatttctgttcatgttgaattctgattggtgtttactgttcttttttggtaaaaagCTAGCTTCAATGGAATCGGTCCGTGGAGTTAATGTTCCTATGTATACAACTCTACGGCGCACGACAGTTGTGTTTACAATGACAATGGAGTATTTCCTGG
|||||||  |  | | || || | ||    | |     | | |||| | |||| ||| || ||    |||||| |||| |  |||||     ||  |  |||||||| | |||||||||||||||| || |||||||| |||||||| ||||||||||| ||  ||||||| ||||| || |||||||||||||||||||||||| |||
gtatgcttctttcttcacttataatacatttattaaatacacttagtcgcatgtatt-ctatttgaattgaatcctgagtaatgttt-----tccatcatggtaaaa-gTTAGCTTCAATGGAATCTGTGCGTGGAGTCAATGTTCCGATGTATACAACACTGAGGCGCACAACAGTAGTCTTTACAATGACAATGGAGTATTTCTTGG

upper sequence: GRMZM2G133226_T03 (Zea mays), 3'ss of exon 3
lower sequence: Vv04s0008g05570.t01 (Vitis vinifera), 3'ss of exon 3
gtatgctgatccccttaca-tacagtattagtgtgtttaataattaggctcatgcatttctgttcatgttgaattctgattggtgtttactgttcttttt-tggtaaaaagCTAGCTTCAATGGAATCGGTCCGTGGAGTTAATGTTCCTATGTATACAACTCTACGGCGCACGACAGTTGTGTTTACAATGACAATGGAGTATTTCCTGG
||||||   |    || || |   | |    |   |||| |    |      |   | | | ||| |  |||    | ||   |    | | |||| ||| |  |  |||||||| | | ||||| || || |||||||| |||||||| ||||| || || || ||||| || ||||| ||||||||||||    |||||||| |  |||
gtatgcattttattttgcaatgttgaacacttccttttagtggaaaattgtttctttctttcttcttagtgataaataatgtctacccattcttctctttctccttgaaagCTAGTTACCATGGAGTCTGTTCGTGGAGTAAATGTTCCCATGTACACTACCCTTCGGCGTACTACAGTGGTGTTTACAATGTTTGTGGAGTATATTTTGG
















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|148947034|gb|EC892331.2|EC892331
EST:     GGTTATTACTACGCACCACACCTCTTTCCTTGGCTTATTTACTCTACATG                         CT---T-CAATGGAATCGGTCCGTGGAGTTAATGTTCCTATGTATACAACT
genomic: G-TTATTACTACGCACCACACCTCTTTCCTTGGCTTATTTACTCTACATGgtatgctgat ... tggtaaaaagCTAGCTTCAATGGAATCGGTCCGTGGAGTTAATGTTCCTATGTATACAACT
EST: gi|91054599|gb|EB165017.1|EB165017
EST:     GTTATTACTACGCACCACACCTCTTTCCTTGGCTTATTTACTCTACATG                         CTAGCTTCAATGGAATCGGTCCGTGGAGTTAATGTTCCTATGTATACAACT
genomic: GTTATTACTACGCACCACACCTCTTTCCTTGGCTTATTTACTCTACATGgtatgctgat ... tggtaaaaagCTAGCTTCAATGGAATCGGTCCGTGGAGTTAATGTTCCTATGTATACAACT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atttctgttcatgttgaattctgattggtgtttactgttcttttttggtaaaaagCTAGCTTCAATGGAATCGGTCCGTGGAGTTAATGTTCCTATGTATACAACTCTACGGCGCACGACAGTTGTGTTTACAATGACAATGGAGTATTTCCTGG
                  ttctgat  putative branch site (score: 3)
                              tttactgttctttttt  putative PPT
                                        ttttttggtaaaaa  TA-rich tract