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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgtcagtagtccaagacagcacttggctcgattttattgactcttatgttcacgacatggtgtattcaattttgaccagcagttgaagatgataatgtactttgcagGTCGAATTCATCTTGATGGGTGGGACTTTCATGTCCTTACCAGCTGAATATCGTGATTATTTCATCAGAAATCTTCATGATGCTTTATCGGGTCACACTT

Basic information

species Zea mays
transcript GRMZM2G359735_T03
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G359735_T03 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os04g40840.1 (Oryza sativa), 3'ss of exon 2
gtttgtcagtagtccaagacagcact-tggctcgattttattgactc---ttatgttcacgacatggtgtattcaattttgaccagcagttgaagatgat---aatgtactttgcagGTCGAATTCATCTTGATGGGTGGGACTTTCATGTCCTTACCAGCTGAATATCGTGATTATTTCATCAGAAATCTTCATGATGCTTTATCGGGTCACACTT
||||| |  ||  ||  || ||   | || || | ||| | | | ||   | |  |||  |  |   |  ||| |||  | | ||  |||| || || ||   |||  | | |||||||||||||||| ||||||||||| ||||||||||| ||||||||||| ||||| ||||||||||| ||||||||||||||||| |||||||| |||||||
gtttgccctta-cccttgagagtgttgtgtcttggtttgagtaattcgattcactttctagttacatttgatt-aatgct-atcataagtttaaaataatttgaatacattatgcagGTCGAATTCATATTGATGGGTGGAACTTTCATGTCATTACCAGCTGATTATCGGGATTATTTCATTAGAAATCTTCATGATGCCTTATCGGGACACACTT

upper sequence: GRMZM2G359735_T03 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA04G36790.1 (Glycine max), 3'ss of exon 2
gtttgtcagtagtccaagacagcacttggctcgattttattgactcttatgttcacgacatg-gtgtat-tcaattttgaccagcagttgaagatgataatgtactttgcagGTCGAATTCATCTTGATGGGTGGGACTTTCATGTCCTTACCAGCTGAATATCGTGATTATTTCATCAGAAATCTTCATGATGCTTTATCGGGTCACACTT
    ||  | ||  ||    |   ||   || || | |    |  |  | || || || ||| | |||  |  | | ||   ||   ||| |  |     |||  ||| ||||| || || ||||| ||||| || || ||||||||  | || ||||| || |||||||| || || |||||||||||||||||||| || || ||||| |
----gtttgaagctcattttatatct---cttgaatattccaatcc--aagtacatgaaatgagagtagatttactgtgtgaagtccttgtaactatggttgttgttttcagGTTGAGTTTATCTTAATGGGAGGTACCTTCATGTCACTTCCGGCTGATTACCGTGATTACTTTATAAGAAATCTTCATGATGCTTTGTCTGGACACACAT

upper sequence: GRMZM2G359735_T03 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA06G18150.1 (Glycine max), 3'ss of exon 2
gtttgtcagtagtccaagacagcacttggctcgattttattgactcttatgttcacgacatggtgtattcaattttgaccagcagttgaagatgataatgtactttgcagGTCGAATTCATCTTGATGGGTGGGACTTTCATGTCCTTACCAGCTGAATATCGTGATTATTTCATCAGAAATCTTCATGATGCTTTATCGGGTCACACTT
    ||  | ||  ||       || |  || || | |    |  |   ||      | | |      |  | | ||   || | ||  |  |     |||  ||| ||||| ||||| ||||| ||||| || || ||||||||  | || ||||| || |||||||| || || |||||||||||||||||||| || || ||||| |
----gtttggagctca---ttttacatctcttgaatattccaatccaagtgcatgaaataagagtagatttactgtgtaaagtacttataattatggttgttattttcagGTTGAATTTATCTTAATGGGCGGTACCTTCATGTCACTTCCGGCTGATTACCGTGATTACTTTATAAGAAATCTTCATGATGCTTTGTCTGGACACACAT

upper sequence: GRMZM2G359735_T03 (Zea mays), 3'ss of exon 2
lower sequence: AT5G50320.1 (Arabidopsis thaliana), 3'ss of exon 2
gtttgtcagtagtccaagacagcacttggctcgattttattgactcttatgttcacgacatggtgtattcaattttgaccagcagttgaagatgataatgtactttgcagGTCGAATTCATCTTGATGGGTGGGACTTTCATGTCCTTACCAGCTGAATATCGTGATTATTTCATCAGAAATCTTCATGATGCTTTATCGGGTCACACTT
    || || |||   | |   |   |  |  |    |||| | | |  |  |    ||   || |  | |   | ||  |  | |      |||| || |   |  ||||| || ||||| |||||||| || |||||||||||  | || ||||| ||||| ||||  |||||  | |||||||||||||||||||| || |||||||
----gttag-agtttgatatttctagtaacctgtgagtatt-attttcgttctttttac-cagtct-cttagcctagaggattactc----ctgattatatgaatgacagGTTGAGTTCATTTTGATGGGAGGTACTTTCATGTCACTGCCTGCTGAGTATCGGGATTTCTTCATACGGAATCTTCATGATGCTTTATCAGGACACACTT

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|149056996|gb|EE156553.2|EE156553
EST:     CCAGGAGCAGGATAGATCAGCTCAAGAGGCTAGGGCATAGCGTGGATAAG                         GTCGAATTCATCTTGATGGGTGGGACTTTCATGTCCTTACCAGCTGAATAT
genomic: CCAGGAGCAGGATAGATCAGCTCAAGAGGCTAGGGCATAGCGTGGATAAGgtttgtcagt ... tactttgcagGTCGAATTCATCTTGATGGGTGGGACTTTCATGTCCTTACCAGCTGAATAT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cgacatggtgtattcaattttgaccagcagttgaagatgataatgtactttgcagGTCGAATTCATCTTGATGGGTGGGACTTTCATGTCCTTACCAGCTGAATATCGTGATTATTTCATCAGAAATCTTCATGATGCTTTATCGGGTCACACTT
                 ttttgac  putative branch site (score: 3)
          tattcaatttt  TA-rich tract