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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtctgatttgcttattttccagcaaactatgtttaatactaggtaagcataacaattcttattctttgaattcgcgcagAATGGTACACGATTCTTCTTCAGAGGCCAGCGTATCTGGGAAGCAGTTATGAACGAACTTGTAGTTAAGGGGCTCAGGAATGCTAAACAGGTCATTCCTT

Basic information

species Zea mays
transcript GRMZM2G141873_T03
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G141873_T03 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os05g02120.1 (Oryza sativa), 3'ss of exon 4
gtctgatttgc----ttattttccagcaaactatgtttaatactaggtaagcataacaattctta--ttctttgaattcgcgcagAATGGTACACGATTCTTCTTCAGAGGCCAGCGTATCTGGGAAGCAGTTATGAACGAACTTGTAGTTAAGGGGCTCAGGAATGCTAAACAGGTCATTCCTT
|||||||||||    || |||| ||  | |   | ||    |||  |||    |    |     |  |  | | |||    ||||||||| |||  |||||| ||| | ||||||||||||||||| ||||| |||| ||||||| || | ||||| |||||| |||| ||||||          
gtctgatttgcccttttttttttcaatagatgttcttagtaactcagtatttgttctgacatccaggtattgttaatcattgcagAATGGCACAAAATTCTTTTTCCGGGGCCAGCGTATCTGGGAGGCAGTAATGAGCGAACTTCTACTAAAGGGACTCAGGCATGCCAAACAG----------

upper sequence: GRMZM2G141873_T03 (Zea mays), 3'ss of exon 4
lower sequence: Vv08s0007g00290.t01 (Vitis vinifera), 3'ss of exon 4
---------------------------------------gtctgatttgcttattttc-cagcaaactatgtttaatactaggtaagcataacaattcttattctttgaattcgcg-cagAATGGTACACGATTCTTCTTCAGAGGCCAGCGTATCTGGGAAGCAGTTATGAACGAACTTGTAGTTAAGGGGCTCAGGAATGCTAAACAGGTCATTCCTT
                                         |   | ||| |   |   || || ||    || ||||     |||  ||||  ||  |   | ||    |  | |  ||||||  |||| | ||||||||||||| ||||| |||||||||||||||||| | |||||  ||   |  || ||    ||||||||||||          
gtttctgtcttgtttgatgtttaagtaactctttttataaacaattgtgcatgcctctacatcacacctaattaaataaataataa--ataattatgttgtctgttaatttctgtgatagAATGAAACACAACTCTTCTTCAGAGGTCAGCGCATCTGGGAAGCAGTTATGGATGAACTCTTATCAATAGGACTGTCTAATGCTAAACAG----------
















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|32823427|gb|CD963149.1|CD963149
EST:     GATATTGCGATGGGGCATCATTCTCTGGGGATGTAAAAGATGAATTGCAG                         AATGGCACACGATTCTTCTTCAGAGGCCAGCGTATCTGGGAAGCAGTTATG
genomic: GATATTGCGACGGGGCATCATTCTCTGGGGATGTAAAAGATGAATTGCAGgtctgatttg ... attcgcgcagAATGGTACACGATTCTTCTTCAGAGGCCAGCGTATCTGGGAAGCAGTTATG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aactatgtttaatactaggtaagcataacaattcttattctttgaattcgcgcagAATGGTACACGATTCTTCTTCAGAGGCCAGCGTATCTGGGAAGCAGTTATGAACGAACTTGTAGTTAAGGGGCTCAGGAATGCTAAACAGGTCATTCCTT
                      gcataac  putative branch site (score: 3)
                        ataacaattcttatt  TA-rich tract