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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttggttatattctcattagctgcagtttccattaataaatggtcttcgttaacctatcctcttgtttctttttgcagTGGAACAATTAGATATGCGAGTGTCCATGCCCATTTGGGGAGCACTGGTAGTAGGAGGGATGATTTAGAGTTACTGGCATACACCCTTATTTTCTTGATA

Basic information

species Zea mays
transcript GRMZM2G017204_T01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G017204_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os07g07560.1 (Oryza sativa), 3'ss of exon 9
gttggttatattctcat--tagctgcagttt-ccattaata-aatggtcttcgttaacctatcctcttgtttctttttgcagTGGAACAATTAGATATGCGAGTGTCCATGCCCATTTGGGGAGCACTGGTAGTAGGAGGGATGATTTAGAGTTACTGGCATACACCCTTATTTTCTTGATA
|||||  ||||||||    || ||||  | |  |  | ||| | || | ||   | |  | |    | |||| ||||  ||| || |||||||||||||| ||||||||||||||||| ||  | |||||||||||||||||||||||||||| | |||| ||||||||||| ||  | |||
gttggcaatattctctctgtacctgctatctgtctctcatatagtgctttttacttatttttatcttcgtttttttt--cagGGGTACAATTAGATATGCCAGTGTCCATGCCCATTTAGGCCGTACTGGTAGTAGGAGGGATGATTTAGAGTCATTGGCGTACACCCTTATATTTCTAATA

upper sequence: GRMZM2G017204_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA16G04580.1 (Glycine max), 3'ss of exon 9
gttggttatattctcattagctgcagtttccattaataaatggtcttcgttaacctatcctcttgtttctttttg--cagTGGAACAATTAGATATGCGAGTGTCCATGCCCATTTGGGGAGCACTGGTAGTAGGAGGGATGATTTAGAGTTACTGGCATACACCCTTATTTTCTTGATA
||| || ||||| | || |  ||    |       |||  | |  ||     |   ||  |  | |  |||||||  ||| |||||||| || ||||| ||||| ||||| ||||| || || ||||| ||| | ||||||||  | |||| |||||||||||| ||  | ||  | |||
gtttgt-atatt-ttatgacttgtttgtcatggctatattttgcttttacatattgatgataatatgcctttttgtgcagGGGAACAATAAGGTATGCTAGTGTACATGCACATTTAGGTAGGACTGGAAGTCGAAGGGATGACCTTGAGTCACTGGCATACACACTAGTATTTCTCATA

upper sequence: GRMZM2G017204_T01 (Zea mays), 3'ss of exon 1
lower sequence: PP1S131_16V6.1 (Physcomitrella patens), 3'ss of exon 8
---------------------------gttggttatattctcatt--agctgcagtttccatt---aataaatggtct-tcgttaacctatcctcttgtttctttt------------tgcagTGGAACAATTAGATATGCGAGTGTCCATGCCCATTTGGGGAGCACTGGTAGTAGGAGGGATGATTTAGAGTTACTGGCATACACCCTTATTTTCTTGATA
                           || | |   ||||   ||   ||||   |  |  ||   | | | || | |  |  | | ||||  | |  ||   | |            |||||||||||  || | ||||| ||||| ||||| |||||||| || ||||| ||||||||||| || || || | |||||| |||||  |  | ||| |  | 
gtgaggttcttccccctgtcctgatctgtagttgccattcctgttttggctgttttggcggttgggagtgactgttttgcccctgagctatattttgattctgtgtaatttccgtacatgcagTGGAACTGTTCGCTATGCAAGTGTGCATGCACATTTGGGAAGGACTGGGAGTAGGAGGGACGACTTGGAATCACTGGCTTACACTTTGGTATTCCTTCTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cagtttccattaataaatggtcttcgttaacctatcctcttgtttctttttgcagTGGAACAATTAGATATGCGAGTGTCCATGCCCATTTGGGGAGCACTGGTAGTAGGAGGGATGATTTAGAGTTACTGGCATACACCCTTATTTTCTTGATA
                        cgttaac  putative branch site (score: 3)
                              cctatcctcttgtttc  CT-rich tract
        attaataaat  TA-rich tract