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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGAACGAGTAGGCCTGCTCACTACCATGTCCTCTGGGATGAGAACAATTTCACAGCAGACGAAATGCAGACATTGACAAACAACCTTTGCTACACgtaatgcacttcttttatatgctatgtttgtcccttgcactttgaactttgaactttttgagaattttcttagattgatgtatactgatgcag

Basic information

species Zea mays
transcript GRMZM2G079080_T02
intron # 20
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G079080_T02 (Zea mays), 5'ss of exon 20
lower sequence: LOC_Os06g39640.1 (Oryza sativa), 5'ss of exon 20
GGAACGAGTAGGCCTGCTCACTACCATGTCCTCTGGGATGAGAACAATTTCACAGCAGACGAAATGCAGACATTGACAAACAACCTTTGCTACACgtaatgcacttcttttatatgctatgtttgtcccttgcactttgaactttgaactttttgagaattttcttagattg-atgtatactgatgcag
||||| |||||||| ||||||||||| ||||| |||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||  ||| | ||      || || |||| ||| ||||||| ||| |||    || | |   |||| ||| |  | | |  | | |||||||||
GGAACAAGTAGGCCAGCTCACTACCACGTCCTTTGGGATGAGAACAATTTCACTGCAGACGAAATGCAGACATTGACAAACAACCTTTGCTACACgtacggcattactgaatcttgttaagtttatcctttgcactctgagcttct--ctctatagaaattgtctgacttggtacatttgctgatgcag

upper sequence: GRMZM2G079080_T02 (Zea mays), 5'ss of exon 20
lower sequence: GLYMA06G23920.1 (Glycine max), 5'ss of exon 20
GGAACGAGTAGGCCTGCTCACTACCATGTCCTCTGGGATGAGAACAATTTCACAGCAGACGAAATGCAGACATTGACAAACAACCTTTGCTACACgtaatgcacttcttttatatgctatgtttg-tcccttgcactttgaactttgaactttttgagaattttcttagattgatgtatactgatgcag
|| || ||||| || || ||||| || ||||||||||| |||||||||||||| ||||| || || ||| |  | || |||||  | ||||||||||||  |  ||  | |||     || ||   |   ||   || |  | ||| ||  |    | ||  ||| ||   |  ||  | | |      
GGTACAAGTAGACCAGCACACTATCACGTCCTCTGGGACGAGAACAATTTCACTGCAGATGAGATTCAGTCTCTAACCAACAATTTGTGCTACACgtaa-acgatttctctattcctcatcttgaattttttattctctctatttttaagatgac-ataaccttcctaacattttggttgcag------

upper sequence: GRMZM2G079080_T02 (Zea mays), 5'ss of exon 20
lower sequence: Vv05s0020g04190.t01 (Vitis vinifera), 5'ss of exon 18
GGAACGAGTAGGCCTGCTCACTACCATGTCCTCTGGGATGAGAACAATTTCACAGCAGACGAAATGCAGACATTGACAAACAACCTTTGCTACACgta------atgcacttcttttatat-----gctatgtttgtcccttgcactt--tgaactttga-----actt---tttgagaattttcttagattgatgtatactgatgcag------------------
                           ||  | |||||||||||||||||||||||||| | ||| ||  | ||||| ||||| ||||||||||| ||       |||||    |   | |     | || |  |||   |    | |  |||| ||| |     |  |   ||  ||||||   ||       || | |||  | | |                  
---------------------------GTTTTATGGGATGAGAACAATTTCACAGCAGATGGAATTCAATCCTTGACGAACAATCTTTGCTACACATATGCAAGGTGCACACGATCGGTGTCTGTTGgtaagcctgtttttccttcctaatgaagtttcatatgcatctgcattcaagaattaaattgttcccttgaaaactttttcggaaaaaaatgtcaaagatt

upper sequence: GRMZM2G079080_T02 (Zea mays), 5'ss of exon 20
lower sequence: Vv11s0016g04620.t01 (Vitis vinifera), 5'ss of exon 20
GGAACGAGTAGGCCTGCTCACTACCATGTCCTCTGGGATGAGAACAATTTCACAGCAGACGAAATGCAGACATTGACAAACAACCTTTGCTACACgtaatgcacttcttttatatgctatgtttgtcccttgcactttgaactttgaactttttgagaattttcttagattgatgtatactgatgcag
|| || ||  | || ||||| || ||||| ||||||||||||||||| || |||||||| || || ||  | ||||| |||||||| || |||||||||  | | || ||    ||||       || |||       ||  | | || |||   |  ||||  |  | ||||   |    | |||||
GGGACCAGCCGACCCGCTCATTATCATGTTCTCTGGGATGAGAACAACTTTACAGCAGATGAGATCCAATCTTTGACGAACAACCTCTGTTACACgtaagacgcatcattcccttgct-------tctctt---tccagagttattaattttaccatgatttaatctggttgaca-acttggttgcag

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|6021559|gb|AW066487.1|AW066487
EST:     AATTTCACAGCAGACGAAATGCAGACATTGACAAACAACCTTTGCTACAC                         TTATGCCCGGNGCACACGCTCGGTTTGTGGTG
genomic: AATTTCACAGCAGACGAAATGCAGACATTGACAAACAACCTTTGCTACACgtaatgcact ... actgatgcagTTATGCCCGGTGCACACGCTCGGTTTCTGTTG