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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgatttttttttgtcctaatcagtgccaatccttcttgtactgcttagtgactttctgttattttctatctaatcgtggagagccaattgcttcatgcagGTGGCACGGATCATTTTGTTCGTCTACTTGTTTTACCACATTTACTTCCACTATGATCAG

Basic information

species Zea mays
transcript GRMZM5G825226_T03
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G825226_T03 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os01g56230.4 (Oryza sativa), 3'ss of exon 7
-tgatttttttttgt--cctaatcagt--gccaatccttcttgtactgcttagtgactttctgttattttctatctaatcgtggagagccaattgcttcatgcagGTGGCACGGATCATTTTGTTCGTCTACTTGTTTTACCACATTTACTTCCACTATGATCAG----------------------------------------
 | ||   |  | ||  ||||||||||  | |  |   ||| || ||| ||||  | ||  | |   | ||     ||  |||||   ||| ||||||  | ||||||||| |||| ||||||||| ||||||||||||||||||| ||||| |||  |||||||                                        
ttaatcaataatagttgcctaatcagttagacgctgtctctggtgctgtttaggaagttcttatatatctc-----aaatgtggaccaccatttgcttactacagGTGGCAAGGATAATTTTGTTCATCTACTTGTTTTACCACATATACTTTCACATTGATCAGGTGCTATATCCTTCTGATTTGATATATGGGTACATGTCTA

upper sequence: GRMZM5G825226_T03 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os01g56230.5 (Oryza sativa), 3'ss of exon 7
-tgatttttttttgt--cctaatcagt--gccaatccttcttgtactgcttagtgactttctgttattttctatctaatcgtggagagccaattgcttcatgcagGTGGCACGGATCATTTTGTTCGTCTACTTGTTTTACCACATTTACTTCCACTATGATCAG
 | ||   |  | ||  ||||||||||  | |  |   ||| || ||| ||||  | ||  | |   | ||     ||  |||||   ||| ||||||  | ||||||||| |||| ||||||||| ||||||||||||||||||| ||||| |||  |||||||
ttaatcaataatagttgcctaatcagttagacgctgtctctggtgctgtttaggaagttcttatatatctc-----aaatgtggaccaccatttgcttactacagGTGGCAAGGATAATTTTGTTCATCTACTTGTTTTACCACATATACTTTCACATTGATCAG
















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|71771874|gb|DR969811.1|DR969811
EST:     AATCCAAGGCCTATCTTGTCAATGGTGTTACGATGTTTATTGCATGGCTG                         GTGGCACGGATCATTTTGTTCGTCTACTTGTTTTACCACATTTACTTCCAC
genomic: AATCCAAGGCCTATCTTGTCAATGGTGTTACGATGTTTATTGCATGGCTGgtatgttact ... cttcatgcagGTGGCACGGATCATTTTGTTCGTCTACTTGTTTTACCACATTTACTTCCAC
EST: gi|86468449|gb|DY234819.1|DY234819
EST:     CCTATCTTGTCAATGGTGTTACGATGTTTTTTGCATGGCTG                         GTGGCACGGATCATTTTGTTCTTCTACTTGTTTTACCACATTTACTTCCAC
genomic: CCTATCTTGTCAATGGTGTTACGATGTTTATTGCATGGCTGgtatgttact ... cttcatgcagGTGGCACGGATCATTTTGTTCGTCTACTTGTTTTACCACATTTACTTCCAC
EST: gi|74237536|gb|DT645450.1|DT645450
EST:     AATCCAAGGCCTATCTTGTCAATGGTGTTACGATGTTTATTGCATGGCTG                         GTGGCACGGATCATTTTTGT-CGTCTAC
genomic: AATCCAAGGCCTATCTTGTCAATGGTGTTACGATGTTTATTGCATGGCTGgtatgttact ... cttcatgcagGTGGCACGGATCATTTT-GTTCGTCTAC
EST: gi|74237535|gb|DT645449.1|DT645449
EST:     AATCCAAGGCCTATCTTGTCAATGGTGTTACGATGTTTATTGCATGGCTG                         GTGGCACGGATCATTTTGTTCGTTTACTTGTTTTACCACATTTACTTCCAC
genomic: AATCCAAGGCCTATCTTGTCAATGGTGTTACGATGTTTATTGCATGGCTGgtatgttact ... cttcatgcagGTGGCACGGATCATTTTGTTCGTCTACTTGTTTTACCACATTTACTTCCAC
EST: gi|149112320|gb|EE295211.2|EE295211
EST:     AATCCAAGGCCTATCTTGTCAATGGTGTTACGATGTTTATTGCATGGCTG                         GTGGCACGGATCATTTTGTTCGTCTACTTGTTTTACCACATTTACTTCCAC
genomic: AATCCAAGGCCTATCTTGTCAATGGTGTTACGATGTTTATTGCATGGCTGgtatgttact ... cttcatgcagGTGGCACGGATCATTTTGTTCGTCTACTTGTTTTACCACATTTACTTCCAC
EST: gi|76918369|gb|DV167265.1|DV167265
EST:     ATCTA-GGCCTATCTTGTCAATGGGTGT-ACGATGTTTATTGCATGGCTG                         GTGGCACGGATCATTTTGTTCGTCTACTTGTTTTAC-ACATTTACTTCCAC
genomic: ATCCAAGGCCTATCTTGTCAATGG-TGTTACGATGTTTATTGCATGGCTGgtatgttact ... cttcatgcagGTGGCACGGATCATTTTGTTCGTCTACTTGTTTTACCACATTTACTTCCAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tagtgactttctgttattttctatctaatcgtggagagccaattgcttcatgcagGTGGCACGGATCATTTTGTTCGTCTACTTGTTTTACCACATTTACTTCCACTATGATCAG
                      atctaat  putative branch site (score: 3)
                                          ttgcttc  putative PPT
             ttattttctatctaat  TA-rich tract