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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgttttcgcagttctttaattcgtacattcagaagtcttggcaccacttcatctcaccaacactagcttatcacctcacgtttcttctgcaccatgcagACTTTGGATGAGATACCACTTGACGCAGAGGCAGTAGAGAGGGGTGGTGGATACTCCCTCGATTCTGATGCGATTGGTCTACCAAGGGCTCATGGGCTTT

Basic information

species Zea mays
transcript GRMZM2G180335_T01
intron # 19
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G180335_T01 (Zea mays), 3'ss of exon 19
lower sequence: LOC_Os01g69130.2 (Oryza sativa), 3'ss of exon 19
gtatgttttcgcagttctttaattcgtacattcagaagtcttggcaccacttcatctcaccaacactagcttatcacctcacgtttcttctgcaccatgcagACTTTGGATGAGATACCACTTGACGCAGAGGCAGTAGAGAGGGGTGGTGGATACTCCCTCGATTCTGATGCGATTGGTCTACCAAGGGCTCATGGGCTTT------
|||||||||  |||  ||    ||   |  || | |    ||   ||   || ||||    |||| ||  ||||    |  | ||       ||   | |||||||||||||||||||||||||| || ||  |||| ||||| ||       || ||||| ||| | ||||| |  |||||||||||||||||||||||||      
gtatgttttgtcagaactaagttttccattttaatagcatttcatactgattgatct----aacattaaattatttattggccttgtg---acatgcttcagACTTTGGATGAGATACCACTTGAAGCGGACACAGTTGAGAGAGGC------TATTCCCTGGATGCCGATGCAACAGGTCTACCAAGGGCTCATGGGCTTTCTTCAT

upper sequence: GRMZM2G180335_T01 (Zea mays), 3'ss of exon 19
lower sequence: LOC_Os01g69130.2 (Oryza sativa), 3'ss of exon 19
gtatgttttcgcagttctttaattcgtacattcagaagtcttggcaccacttcatctcaccaacactagcttatcacctcacgtttcttctgcaccatgcagACTTTGGATGAGATACCACTTGACGCAGAGGCAGTAGAGAGGGGTGGTGGATACTCCCTCGATTCTGATGCGATTGGTCTACCAAGGGCTCATGGGCTTT------
|||||||||  |||  ||    ||   |  || | |    ||   ||   || ||||    |||| ||  ||||    |  | ||       ||   | |||||||||||||||||||||||||| || ||  |||| ||||| ||       || ||||| ||| | ||||| |  |||||||||||||||||||||||||      
gtatgttttgtcagaactaagttttccattttaatagcatttcatactgattgatct----aacattaaattatttattggccttgtg---acatgcttcagACTTTGGATGAGATACCACTTGAAGCGGACACAGTTGAGAGAGGC------TATTCCCTGGATGCCGATGCAACAGGTCTACCAAGGGCTCATGGGCTTTCTTCAT
















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|211326562|gb|FL096798.1|FL096798
EST:     AGAGGAAGCAGATACGTGAAAATCTTAAGGTCCTTCAACAAGCTTACAAA                         ACTTTGGATGAGATACCACTTGACGCAGAGGCAGTAGAGAGGGGTGGTGGA
genomic: AGAGGAAGCAGATACGTGAAAATCTTAAGGTCCTTCAACAAGCTTACAAAgtatgttttc ... caccatgcagACTTTGGATGAGATACCACTTGACGCAGAGGCAGTAGAGAGGGGTGGTGGA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cacttcatctcaccaacactagcttatcacctcacgtttcttctgcaccatgcagACTTTGGATGAGATACCACTTGACGCAGAGGCAGTAGAGAGGGGTGGTGGATACTCCCTCGATTCTGATGCGATTGGTCTACCAAGGGCTCATGGGCTTT
                            acctcac  putative branch site (score: 3)
                                    tttcttctgc  CT-rich tract