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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacaagcgttgctgaaacctcttttgtttcaagcaaaaaatattctgcattgaaattgcaaattataaacttcaatgagccaccagctataattgttgggccttgcaaacattcatttcaaatgctagcaatattaatatgaaccttccagATAAATTAAAGGAGCACTTCTCATCGTACGGGAAGGTGGTTGAGCATCAGATTATGCTTGATCATAGCACTGGACGTTCACGGGGCTTTGGATTTGTCAC

Basic information

species Zea mays
transcript GRMZM2G104481_T01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G104481_T01 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os06g37000.1 (Oryza sativa), 3'ss of exon 3
gta-caagcgttgctgaaacctcttttgttt-caagcaaaaaatattctgcattgaaattgcaaattataaacttcaatgagccaccagctataattgttgggccttgcaaacattcatttcaaatgctagcaatattaatatgaaccttccagATAAATTAAAGGAGCACTTCTCATCGTACGGGAAGGTGGTTGAGCATCAGATTATGCTTGATCATAGCACTGGACGTTCACGGGGCTTTGGATTTGTCAC
||| | |||    || |    | |  | ||| ||||||||||    | || |||     |  |||  |    ||| |||   | |      ||||| |||  | ||||  ||          | |||        |||   ||||| |||||||||||||| |||||||| ||||| || || |||||||| |||||||||||||| |||||||| ||| ||||||| || ||||| |||||||| ||||||||
gtagccagcagaactaagttgtttcctttttacaagcaaaaatatatttgtatt----ctagaaaacaatggcttgaatactctaa-----ataat-gttatgtcttgataa----------atatg--------attgtcatgaaacttccagATAAATTGAAGGAGCATTTCTCTTCATATGGGAAGGTAGTTGAGCATCAGATAATGCTTGACCATGGCACTGGGCGGTCACGAGGCTTTGGCTTTGTCAC
















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|22473266|gb|BU037746.1|BU037746
EST:     TAAGACAAAAAAGATCTTTGTGGGTGGTATCCCACCATCTCTTACTGAAG                         ATAAATTAAAGGAGCACTTCTCATCGTACGGGAAGGTGGTTGAGCATCAGA
genomic: TAAGACAAAAAAGATCTTTGTGGGTGGTATCCCACCATCTCTTACTGAAGgtacaagcgt ... aaccttccagATAAATTAAAGGAGCACTTCTCATCGTACGGGAAGGTGGTTGAGCATCAGA
EST: gi|87155291|gb|DY400080.1|DY400080
EST:     TAAGACAAAAAAGATCTTTGTGGGTGGTATCCCACCATCTCTTACTGAAG                         ATAAATTAAAGGAGCACTTCTCATCGTACGGGAAGGTGGTTGAGCATCAGA
genomic: TAAGACAAAAAAGATCTTTGTGGGTGGTATCCCACCATCTCTTACTGAAGgtacaagcgt ... aaccttccagATAAATTAAAGGAGCACTTCTCATCGTACGGGAAGGTGGTTGAGCATCAGA
EST: gi|37420327|gb|CF647854.1|CF647854
EST:     TAAGACAAAAAAGATCTTTGTGGGTGGTATCCCACCATCTCTTACTGAAG                         ATAAATTAAAGGAGCACTTCTCATCGTACGGGAAGGTGGTTGAGCATCAGA
genomic: TAAGACAAAAAAGATCTTTGTGGGTGGTATCCCACCATCTCTTACTGAAGgtacaagcgt ... aaccttccagATAAATTAAAGGAGCACTTCTCATCGTACGGGAAGGTGGTTGAGCATCAGA
EST: gi|211231926|gb|FL398741.1|FL398741
EST:     TAAGACAAAAAAGATCTTTGTGGGTGGTATCCCACCATCTCTTACCGAAG                         ATAAATTAAAGGAGCACTTCTCATCGTACGGGAAGGTGGTTGAGCATCAGA
genomic: TAAGACAAAAAAGATCTTTGTGGGTGGTATCCCACCATCTCTTACTGAAGgtacaagcgt ... aaccttccagATAAATTAAAGGAGCACTTCTCATCGTACGGGAAGGTGGTTGAGCATCAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgggccttgcaaacattcatttcaaatgctagcaatattaatatgaaccttccagATAAATTAAAGGAGCACTTCTCATCGTACGGGAAGGTGGTTGAGCATCAGATTATGCTTGATCATAGCACTGGACGTTCACGGGGCTTTGGATTTGTCAC
                                   tattaat  putative branch site (score: 2)
                                               ccttcc  putative PPT
                                 aatattaatatgaa  TA-rich tract