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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgctgatccccttacatacagtattagtgtgtttaataattaggctcatgcatttctgttcatgttgaattctgattggtgtttactgttcttttttggtaaaaagctagCTTCAATGGAATCGGTCCGTGGAGTTAATGTTCCTATGTATACAACTCTACGGCGCACGACAGTTGTGTTTACAATGACAATGGAGTATTTCCTGGCAAA

Basic information

species Zea mays
transcript GRMZM2G133226_T02
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G133226_T04 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os02g40030.2 (Oryza sativa), 3'ss of exon 3
gtatgctgatccccttacatacagtattagtgtgtttaataattaggctcatgcatttctgttcatgttgaattctgattggtgtttactgttcttttttggtaaaaagctagCTTCAATGGAATCGGTCCGTGGAGTTAATGTTCCTATGTATACAACTCTACGGCGCACGACAGTTGTGTTTACAATGACAATGGAGTATTTCCTGGCAAA
|||||||  |  | | || || | ||    | |     | | |||| | |||| ||| || ||    |||||| |||| |  |||||     ||  |  |||||||| | |||||||||||||||| || |||||||| |||||||| ||||||||||| ||  ||||||| ||||| || |||||||||||||||||||||||| |||    
gtatgcttctttcttcacttataatacatttattaaatacacttagtcgcatgtatt-ctatttgaattgaatcctgagtaatgttt-----tccatcatggtaaaa-gTTAGCTTCAATGGAATCTGTGCGTGGAGTCAATGTTCCGATGTATACAACACTGAGGCGCACAACAGTAGTCTTTACAATGACAATGGAGTATTTCTTGG----

upper sequence: GRMZM2G133226_T04 (Zea mays), 3'ss of exon 3
lower sequence: Vv04s0008g05570.t01 (Vitis vinifera), 3'ss of exon 3
gtatgctgatccccttaca-tacagtattagtgtgtttaataattaggctcatgcatttctgttcatgttgaattctgattggtgtttactgttcttttt-tggtaaaaagctagCTTCAATGGAATCGGTCCGTGGAGTTAATGTTCCTATGTATACAACTCTACGGCGCACGACAGTTGTGTTTACAATGACAATGGAGTATTTCCTGGCAAA
||||||   |    || || |   | |    |   |||| |    |      |   | | | ||| |  |||    | ||   |    | | |||| ||| |  |  |||||||| | | ||||| || || |||||||| |||||||| ||||| || || || ||||| || ||||| ||||||||||||    |||||||| |  |||    
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|148933236|gb|EC876886.2|EC876886
EST:     GGTTATTACTACGCACCACACCTCTTTCCTTGGCTTATTTACTCTACATG                         CTTCAATGGAATCGGTCCGTGGAGTTAATGTTCCTATGTATACAACTCTAC
genomic: GGTTATTACTACGCACCACACCTCTTTCCTTGGCTTATTTACTCTACATGgtatgctgat ... aaaaagctagCTTCAATGGAATCGGTCCGTGGAGTTAATGTTCCTATGTATACAACTCTAC
EST: gi|71440136|gb|DR821186.1|DR821186
EST:     GGTTATTACTACGCACCACACCTCTTTCCTTGGCTTATTTACTCTACATG                         CTAGCTTCAATGGAATCGGTCCGTGGAGTTAATGTTCCTATGTATACAACT
genomic: GGTTATTACTACGCACCACACCTCTTTCCTTGGCTTATTTACTCTACATGgtatgctgat ... aaaaagctagCT---T-CAATGGAATCGGTCCGTGGAGTTAATGTTCCTATGTATACAACT
EST: gi|149014040|gb|EE043561.2|EE043561
EST:     GGTTATTACTACGCACCACACCTCTTTCCTTGGCTTATTTACTCTACATG                         CTAGCTTCAATGGAATCGGTCCGTGGAGTTAATGTTCCTATGTATACAACT
genomic: GGTTATTACTACGCACCACACCTCTTTCCTTGGCTTATTTACTCTACATGgtatgctgat ... aaaaagctagCT---T-CAATGGAATCGGTCCGTGGAGTTAATGTTCCTATGTATACAACT
EST: gi|148968927|gb|EE019612.2|EE019612
EST:     GGTTATTACTACGCACCACACCTCTTTCCTTGGCTTATTTACTCTACATG                         CTAGCTTCAATGGAATCGGTCCGTGGAGTTAATGTTCCTATGTATACAACT
genomic: GGTTATTACTACGCACCACACCTCTTTCCTTGGCTTATTTACTCTACATGgtatgctgat ... aaaaagctagCT---T-CAATGGAATCGGTCCGTGGAGTTAATGTTCCTATGTATACAACT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctgttcatgttgaattctgattggtgtttactgttcttttttggtaaaaagctagCTTCAATGGAATCGGTCCGTGGAGTTAATGTTCCTATGTATACAACTCTACGGCGCACGACAGTTGTGTTTACAATGACAATGGAGTATTTCCTGGCAAA
              ttctgat  putative branch site (score: 3)
                                    ttttttggtaaaaa  TA-rich tract