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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgcttttgctcctgtttctgccaaataaatttcattattaagctgatgtattctttattttaaatttggccaagtgctaacatttcctgctccaactcagGAATGTATGTAGCCAACCGTGCTTCAGACAAGATTACCCAATTGACAGACAATGTGTACGTTTGTCGCTCTGGATCTGTAAGTGTTGTTGTCTTCTAATG

Basic information

species Zea mays
transcript GRMZM2G374881_T01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G374881_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os06g04800.1 (Oryza sativa), 3'ss of exon 1
-tgcttttgctcctgtttctgccaaataaatttcattattaagctgatgtattctttattttaaatttggccaagtgctaacatttcctgctccaactcagGAATGTATGTAGCCAACCGTGCTTCAGACAAGATTACCCAATTGACAGACAATGTGTACGTTTGTCGCTCTGGATCTGTAAGTGTTGTTGTCTTCTAATG
 || |          |   |   || |   | |  |   |  |||  | |||| |||   || |||||       |  |   || |  || |    || |||||||||||| || |||||||| || ||||| ||||| ||| |||| |||||||||||||| || ||||||||||||                       
ttgatccaatcgaaatcaatattaagttggtgtgctctgtctgcttgtctattttttccctttaatttaattgcct-ttgttatgtggtgttaattcttagGAATGTATGTGGCGAACCGTGCATCTGACAAAATTACTCAACTGACTGACAATGTGTACGTCTGCCGCTCTGGATCT-----------------------

upper sequence: GRMZM2G374881_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os02g53060.2 (Oryza sativa), 3'ss of exon 1
-tgcttttgctcctgtttctgccaaa--taaatttcattattaagctgatgtattctttattttaaatttggccaagtgctaacatttcctgctccaactcagGAATGTATGTAGCCAACCGTGCTTCAGACAAGATTACCCAATTGACAGACAATGTGTACGTTTGTCGCTCTGGATCTGTAAGTGTTGTTGTCTTCTAATG
 || || ||  ||   |     | |   ||  ||    || || | ||  || ||  ||| |||   ||     |     |    | |  |  |    || |||||||||||| || |||||||| || ||||||||||| ||  | || |||||||||||| | || ||||||||||||                       
atg-ttctgaaccaactgaaatcgatgttatgttgacgtactatgttg--gtttttgttactttcctttaatataccctttgttgtctggtattaattcttagGAATGTATGTGGCAAACCGTGCGTCGGACAAGATTACTCAGCTAACTGACAATGTGTACATCTGCCGCTCTGGATCT-----------------------

upper sequence: GRMZM2G374881_T01 (Zea mays), 3'ss of exon 1
lower sequence: AT4G31300.1 (Arabidopsis thaliana), 3'ss of exon 1
---------------------------------------------------------------tgcttttgctcctgtttctgcca-aataaatttcattattaagctgatgtattctttattttaaatttggccaagtgctaacattt----cctgctccaact--------cagGAATGTATGTAGCCAACCGTGCTTCAGACAAGATTACCCAATTGACAGACAATGTGTACGTTTGTCGCTCTGGATCTGTAAGTGTTGTTGTCTTCTAATG
                                                                  ||||| |   |||||   |  || |||    | |  ||| |   |||  | |||   | || || |   |||   | | ||||     ||| |  || |        |||| ||||| ||||| || || ||||| || |||||||| ||| ||||||| ||||| ||||| || |||||||||||                        
gtgagatttccccccttctctacttttctagggttttagttcctcttcgttgggtttgtatttgagttttgttttcgtttcaatcggaacaaagaataatcctaatcgattgttctatttgggt-aatttagagaaagctgttaaatttgggatctgttgtaaattactcgcgcagGTATGTACGTAGCGAATCGAGCTTCTGATAAGATTACACAACTGACAGATAATGTCTACGTCTGCCGCTCTGGATCG-----------------------

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|211274179|gb|FK988509.1|FK988509
EST:     CTGCTACGAGGGTGGCGTCGTCCTCGGCGCTGATTCCAGAACCAGCACTG                         GAATGTATGTAGCCAACCGTGCTTCAGACAAGATTACCCAATTGACAGACA
genomic: CTGCTACGAGGGTGGCGTCGTCCTCGGCGCTGATTCCAGAACCAGCACTGgtacgccctt ... tccaactcagGAATGTATGTAGCCAACCGTGCTTCAGACAAGATTACCCAATTGACAGACA
EST: gi|71320624|gb|DR797047.1|DR797047
EST:     CTGCTACGAGGGTGGCGTCGTCCTCGGCGCTGATTCCAGAACCAGCACTG                         GAATGTATGTAGCCAACCGTGCTTCAGACAAGATTACCCAATTGACAGACA
genomic: CTGCTACGAGGGTGGCGTCGTCCTCGGCGCTGATTCCAGAACCAGCACTGgtacgccctt ... tccaactcagGAATGTATGTAGCCAACCGTGCTTCAGACAAGATTACCCAATTGACAGACA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgtattctttattttaaatttggccaagtgctaacatttcctgctccaactcagGAATGTATGTAGCCAACCGTGCTTCAGACAAGATTACCCAATTGACAGACAATGTGTACGTTTGTCGCTCTGGATCTGTAAGTGTTGTTGTCTTCTAATG
                             tgctaac  putative branch site (score: 1)
                                     tttcctgctcc  CT-rich tract
     ttctttattttaaatt  TA-rich tract