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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgtatattccaaaccatggatttgtttttctgattgctggtttgatcaattgctcttgaagctctgcggtaactcaacttgctattgggttattttgcagACACAACCAGCGAAGATCTGTTCTCAGGTTGGTCTGTGCACTTTTGATGGCACTCATGGTGTCAG

Basic information

species Zea mays
transcript GRMZM2G035636_T01
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G899123_T01 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os05g49200.2 (Oryza sativa), 3'ss of exon 8
gtttgtatattccaaaccatggatttgtttttctgattgctggtttgatcaattgc-tcttgaagctctgcggtaactcaacttgctattgggttattttgcagACACAACCAGCGAAGATCTGTTCTCAGGTTGGTCTGTGCACTTTTGATGGCACTCATGGTGTCAG
         ||   ||   | | ||   |||||||    | | |||  ||||||   ||||  |    ||   |||  |||||| ||   || |||| ||||||||||| ||| | || ||||| ||||||||||||||||| ||||||||||| |  |||||||| ||
--------gtttgtaat--ttgcttcaattttctggaaacagcttttgtcaattatatctttga----tgaattaaaacaactttctg--ggattatgttgcagACACAGCCATCAAAAATCTGCTCTCAGGTTGGTCTGTGTACTTTTGATGGGAAGCATGGTGTTAG
















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|6964727|gb|AW433420.1|AW433420
EST:     CTGTTGTTTCTCAATATGGACAGCAGATCCTAGATCTTTTGCTAGCTGAG                         ACACAACCAGCGAAGATCTGTTCTCAGGTTGGTCTGTGCACTTTTGATGGC
genomic: CTGTTGTTTCTCAATATGGACAGCAGATCCTAGATCTTTTGCTAGCTGAGgtttgtatat ... tattttgcagACACAACCAGCGAAGATCTGTTCTCAGGTTGGTCTGTGCACTTTTGATGGC
EST: gi|32850229|gb|CD989910.1|CD989910
EST:     CTGTTGTTTCTCAATATGGACAGCAGATCCTAGATCTTTTGCTAGCTGAG                         ACACAACCAGCGAAGATCTGTTCTCAGGTTGGTCTGTGCACTTTTGATGGC
genomic: CTGTTGTTTCTCAATATGGACAGCAGATCCTAGATCTTTTGCTAGCTGAGgtttgtatat ... tattttgcagACACAACCAGCGAAGATCTGTTCTCAGGTTGGTCTGTGCACTTTTGATGGC
EST: gi|32835904|gb|CD975582.1|CD975582
EST:     CTGTTGTTTCTCAATATGGACAGCAGATCCTAGATCTTTTGCTAGCTGAG                         ACACAACCAGCGAAGATCTGTTCTCAGGTTGGTCTGTGCACTTTTGATGGC
genomic: CTGTTGTTTCTCAATATGGACAGCAGATCCTAGATCTTTTGCTAGCTGAGgtttgtatat ... tattttgcagACACAACCAGCGAAGATCTGTTCTCAGGTTGGTCTGTGCACTTTTGATGGC
EST: gi|33092153|gb|CF052147.1|CF052147
EST:     CTGTTGTTTCTCAATATGGACAGCAGATCCTAGATCTTTTGCTAGCTGAG                         ACACAACCAGCGAAGATCTGTTCTCAGGTTGGTCTGTGCACCTTTGATGGC
genomic: CTGTTGTTTCTCAATATGGACAGCAGATCCTAGATCTTTTGCTAGCTGAGgtttgtatat ... tattttgcagACACAACCAGCGAAGATCTGTTCTCAGGTTGGTCTGTGCACTTTTGATGGC
EST: gi|32850207|gb|CD989888.1|CD989888
EST:     CTGTTGTTTCTCAATATGGACAGCAGATCCTAGATCTTTTGCTAGCTGAG                         ACACAACCAGCGAAGATCTGTTCTCAGGTTGGTCTGTGCACTTTTGATGCC
genomic: CTGTTGTTTCTCAATATGGACAGCAGATCCTAGATCTTTTGCTAGCTGAGgtttgtatat ... tattttgcagACACAACCAGCGAAGATCTGTTCTCAGGTTGGTCTGTGCACTTTTGATGGC
EST: gi|32850559|gb|CD990240.1|CD990240
EST:     CTGTTGTTTCTCAATATGGACAGCAGATCCTAGATCTTTTGCTAGCTGAG                         ACACAACCAGCGAAGATCTGTTCTCAGGTTGGTCTGTGCACTTTTGATGGC
genomic: CTGTTGTTTCTCAATATGGACAGCAGATCCTAGATCTTTTGCTAGCTGAGgtttgtatat ... tattttgcagACACAACCAGCGAAGATCTGTTCTCAGGTTGGTCTGTGCACTTTTGATGGC
EST: gi|194716945|gb|FK934104.1|FK934104
EST:     CTGTTGTTTCTCAATATGAACAGCAGATCCTAGATCTTTTGCTAGCTGAG                         ACACAACCAGCGAAGATCTGTTCTCAGGTTGGTCTGTGCACTTTTGATGGC
genomic: CTGTTGTTTCTCAATATGGACAGCAGATCCTAGATCTTTTGCTAGCTGAGgtttgtatat ... tattttgcagACACAACCAGCGAAGATCTGTTCTCAGGTTGGTCTGTGCACTTTTGATGGC
EST: gi|8576947|gb|BE129584.1|BE129584
EST:     TCAATATGGACAGCAGATCCTAGATCTTTTGCTAGCTGAG                         ACACAACCAGCGAAGATCTGTTCCCAGGTTGGTCTGTGCACTTTTGATGGC
genomic: TCAATATGGACAGCAGATCCTAGATCTTTTGCTAGCTGAGgtttgtatat ... tattttgcagACACAACCAGCGAAGATCTGTTCTCAGGTTGGTCTGTGCACTTTTGATGGC
EST: gi|7135183|gb|AW497972.1|AW497972
EST:     CTGTTGTTTCTCAATATGGACAGCAGATCCTAGATCTTTTGCTAGCTGAG                         ACACAACCAGCGAAGATCTGTTCTCAGGTTGGTCTGTGCACTTTTGATGGC
genomic: CTGTTGTTTCTCAATATGGACAGCAGATCCTAGATCTTTTGCTAGCTGAGgtttgtatat ... tattttgcagACACAACCAGCGAAGATCTGTTCTCAGGTTGGTCTGTGCACTTTTGATGGC
EST: gi|32850704|gb|CD990385.1|CD990385
EST:     CTGTTGTTTCTCAATATGGACAGCAGATCCTAGATCTTNTGCTAGCTGAG                         ACACAACCAGCGAAGATCTGTTCTCAGGTTGGTCTGTGCACTTTTGATGGC
genomic: CTGTTGTTTCTCAATATGGACAGCAGATCCTAGATCTTTTGCTAGCTGAGgtttgtatat ... tattttgcagACACAACCAGCGAAGATCTGTTCTCAGGTTGGTCTGTGCACTTTTGATGGC
EST: gi|211224721|gb|FL222439.1|FL222439
EST:     CTGTTGTTTCTCAATATGGACAGCAGATCCTAGATCTTTTGCTAGCTGAG                         ACACAACCAGCGAAGATCTGTTCTCAGGTTGGTCTGTGCACTTTTGATGGC
genomic: CTGTTGTTTCTCAATATGGACAGCAGATCCTAGATCTTTTGCTAGCTGAGgtttgtatat ... tattttgcagACACAACCAGCGAAGATCTGTTCTCAGGTTGGTCTGTGCACTTTTGATGGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcaattgctcttgaagctctgcggtaactcaacttgctattgggttattttgcagACACAACCAGCGAAGATCTGTTCTCAGGTTGGTCTGTGCACTTTTGATGGCACTCATGGTGTCAG
                     cggtaac  putative branch site (score: 3)
                                            ttatttt  putative PPT
                                            ttatttt  TA-rich tract