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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagactgttctttttcattaatcaatgttttgaagatgataagtatacatctctggatactaattatttatttctgttgcagGTTTTTAATAACAGTCCTGATGAAACTGCGTATTTTAGGATGATGTTGGACAGAGAGAATGTAACCAATACAGTTGTGATGATTCAACCTTCACTTATAT

Basic information

species Zea mays
transcript GRMZM2G063775_T02
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G063775_T02 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os09g28610.1 (Oryza sativa), 3'ss of exon 11
----gtagactgttctttttcattaatcaa----tgttttgaagatgataagtatacatctctggatactaattatttatttctgttgcagGTTTTTAATAACAGTCCTGATGAAACTGCGTATTTTAGGATGATGTTGGACAGAGAGAATGTAACCAATACAGTTGTGATGATTCAACCTTCACTTATAT
    | ||   |   || ||||||||  ||    |||       |||  |  |  | | || ||  |||||| ||||| |||    ||||||||||||| || ||||||||||||||||| |||||||||||| | |||||||| ||  ||||||||||| |||| ||||||||||| |||||||||||||
gtagggagctcgcctttgttcattaagaaaagaatgtgacatgtatgggagattcatacctttgcttactaaatatttgttttctatgcagGTTTTTAACAATAGTCCTGATGAAACTGCATATTTTAGGATGGTATTGGACAGGGAAGATGTAACCAATGCAGTCGTGATGATTCAGCCTTCACTTATAT

upper sequence: GRMZM2G063775_T02 (Zea mays), 3'ss of exon 1
lower sequence: AT2G21630.1 (Arabidopsis thaliana), 3'ss of exon 8
--------gtagactgttctttttc-----attaatcaatgttttgaagatg-ataagtatacatctctggatactaattatttatttctgttgcagGTTTTTAATAACAGTCCTGATGAAACTGCGTATTTTAGGATGATGTTGGACAGAGAGAATGTAACCAATACAGTTGTGATGATTCAACCTTCACTTATAT
          | ||||| | | |       ||  |   |  | ||    | | | || | ||    | |||     | ||   | |  || ||| |||| ||||| ||||| || || || || || |||||| | ||||| ||| |||||||||| ||  | ||| |||| |||||||||||||||||||| || |
gtacttatccacactgtccctatatgcacgatcgactgaaatctttttaacgcacaattttatccttttgggc-tcatttggctttgccttttgtagGTCTTTAACAACAGCCCAGACGAGACAGCATATTTTCGAATGATATTGTACAGAGAGAACGTTTCTAATTCAGTCGTGATGATTCAACCTTCACTGATTT

upper sequence: GRMZM2G063775_T02 (Zea mays), 3'ss of exon 1
lower sequence: Vv15s0045g00540.t01 (Vitis vinifera), 3'ss of exon 11
--------------------gtagactgttctttttcattaatcaatgt--tttgaagatgataagta---------------ta-catctctggatactaatt----atttatttctgttgcagGTTTTTAATAACAGTCCTGATGAAACTGCGTATTTTAGGATGATGTTGGACAGAGAGAATGTAACCAATACAGTTGTGATGATTCAACCTTCACTTATAT
                     ||      |||||     | || |  ||  ||||| |||||| | |                || | ||||| |||     |     | || ||| |||  ||||||||||||||||| |||||||| ||||| || ||||| |||||  || || | || |||||  ||||| |||||||||||||||| |||||| | || |
gtataactgactattggtttataattctatctttgcatcttataatcgtagtttgatgatgattaattactctcgccccctcttatcttctctagatttatctctggcaattctttttgtcacagGTTTTTAATAACAGCCCTGATGAGACTGCATACTTTAGAATGATCCTGAACCGGGAAAATGTGGCCAATTCAGTTGTGATGATTCAGCCTTCATTGATTT

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|211191892|gb|FL043211.1|FL043211
EST:     CAATATTTCCCCAATTTATATTTAATTTGAGGCGTTCTCAGTTTGTTCAG                         GTTTTTAATAACAGTCCTGATGAAACTGCGTATTTTAGGATGATGTTGGAC
genomic: CAATATTTCCCCAATTTATATTTAATTTGAGGCGTTCTCAGTTTGTTCAGgtagactgtt ... tctgttgcagGTTTTTAATAACAGTCCTGATGAAACTGCGTATTTTAGGATGATGTTGGAC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttgaagatgataagtatacatctctggatactaattatttatttctgttgcagGTTTTTAATAACAGTCCTGATGAAACTGCGTATTTTAGGATGATGTTGGACAGAGAGAATGTAACCAATACAGTTGTGATGATTCAACCTTCACTTATAT
                              tactaat  putative branch site (score: 1)
                                       tttatttct  putative PPT
                             atactaattatttatt  TA-rich tract