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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgacttcctatccatttaccatagaactgacaaaggaaaataatatgcatttatgctttaactgttgcttgttgcacatcatctgtttcagAGGATGCTTATGACTGAGTTTCAATTGCCGTATAAAGCACTGCCATACTCAGAGTTTGAG

Basic information

species Zea mays
transcript GRMZM2G044317_T02
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G044317_T04 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os07g22400.1 (Oryza sativa), 3'ss of exon 4
gtgacttcctatccatttaccatagaactgacaaaggaaaataatatgcatttatgctttaactgttgcttgttgcacatcatctgtttcagAGGATGCTTATGACTGAGTTTCAATTGCCGTATAAAGCACTGCCATACTCAGAGTTTGAG
||||||| || ||| |||     | |     ||| | ||  ||        | |||||||||| ||| ||||   ||||   | | ||||||||||||||||||| |||||||| | | || || |||||| ||||| |||| || ||||||
gtgactttctgtccttttcttgcata-----caaggaaagcta--------tcatgctttaaccgttccttgc--cacactgtatttttcagAGGATGCTTATGAGTGAGTTTCGACTTCCATACAAAGCATTGCCACACTCGGAATTTGAG
















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|18661200|gb|BM501285.1|BM501285
EST:     AGACTACACTTTTTCGGTATCGCTTTCGGCTTGAGAGTCCTGAAACACAG                         AGGATGCTTATGACTGAGTTTCAATTGCCGTATAAAGCACTGCCATACTCA
genomic: AGACTACACTTTTTCGGTATCGCTTTCGGCTTGAGAGTCCTGAAACACAGgtgacttcct ... tctgtttcagAGGATGCTTATGACTGAGTTTCAATTGCCGTATAAAGCACTGCCATACTCA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaaataatatgcatttatgctttaactgttgcttgttgcacatcatctgtttcagAGGATGCTTATGACTGAGTTTCAATTGCCGTATAAAGCACTGCCATACTCAGAGTTTGAG
                   ctttaac  putative branch site (score: 3)
                                             tctgtttc  putative PPT
            atttat  TA-rich tract