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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagttatcttactgacttaaatacctggacttattgggttttgtatcttagctgtgaacttctgtactccagGTTGGGGTGAGGTTGTCAAATGGGAAGGAGTTCTTTGCTAAAACGGTGATATCAAATGCCACTAGATGGGACACATTTG

Basic information

species Zea mays
transcript GRMZM2G108457_T01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G108457_T02 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os11g36440.1 (Oryza sativa), 3'ss of exon 6
gtgagtt-atcttactgac-ttaaatacctggacttattgggttttgtatcttagctgtgaacttctgtactccagGTTGGGGTGAGGTTGTCAAATGGGAAGGAGTTCTTTGCTAAAACGGTGATATCAAATGCCACTAGATGGGACACATTTG
|| |||| |||||||| |   |||||| |||||  | ||    |     | ||||||| | | |||  ||||  ||||||| || ||||| ||||||||||||||||||||||||||||| |||||||| ||||| || |||||||| |||||||
gtaagttcatcttacttagactaaatatctggagctttta---tcgacttgttagctgagcatttcattactatagGTTGGAGTCAGGTTATCAAATGGGAAGGAGTTCTTTGCTAAAACAGTGATATCGAATGCTACCAGATGGGATACATTTG

upper sequence: GRMZM2G108457_T02 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA02G34060.1 (Glycine max), 3'ss of exon 6
----gtgagttatcttactg---acttaaatacctggacttattgggttttgtatcttagctgtgaactt--ctgtactc----cagGTTGGGGTGAGGTTGTCAAATGGGAAGGAGTTCTTTGCTAAAACGGTGATATCAAATGCCACTAGATGGGACACATTTG
    ||||   ||| || |    || |  ||  |     ||     |     | | ||      |||||   || | ||     ||||| || |||||| | |||||||| |  ||||||||||| |||||  | ||||||||||| || |||||||| |||||||
gtaagtgacacatcataatagaaacattgatgacatattttggaaagaagcattttttcttcaagaactgtactatgctttttgcagGTAGGTGTGAGGCTTTCAAATGGCAGAGAGTTCTTTGCCAAAACTATAATATCAAATGCTACCAGATGGGATACATTTG

upper sequence: GRMZM2G108457_T02 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA10G10990.1 (Glycine max), 3'ss of exon 6
----gtgagttatct-tactgac---ttaaatacctggacttattgg--gttttgtatctt--agctgtgaact-tctgtactccagGTTGGGGTGAGGTTGTCAAATGGGAAGGAGTTCTTTGCTAAAACGGTGATATCAAATGCCACTAGATGGGACACATTTG
    |||||  |||  ||  ||    || ||||| |    |     |  ||||||| || |  ||   || ||| |   |  | |||||||| |||||| | |||||||| |  ||||||||||| |||||  | ||||||||||| || |||||||| |||||||
gtaagtgagacatcagtatagaaacattgaatacatattttggaaagaagttttgtttcctcaagaactgtactatgctttttgcagGTTGGTGTGAGGCTTTCAAATGGCAGAGAGTTCTTTGCCAAAACCATAATATCAAATGCTACCAGATGGGATACATTTG

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|149086469|gb|EE176014.2|EE176014
EST:     TCCGTTACAAGGCGAATGTAACCAATGTTGTTCTTGAAAATGGAAAGGCT                         GTTGGGGTGAGGTTGTCNAATGGGAAGGAGTTCTTTGCTAAAACGGTGATA
genomic: TCCGTTACAAGGCGAATGTAACCAATGTTGTTCTTGAAAATGGAAAGGCTgtgagttatc ... tgtactccagGTTGGGGTGAGGTTGTCAAATGGGAAGGAGTTCTTTGCTAAAACGGTGATA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taaatacctggacttattgggttttgtatcttagctgtgaacttctgtactccagGTTGGGGTGAGGTTGTCAAATGGGAAGGAGTTCTTTGCTAAAACGGTGATATCAAATGCCACTAGATGGGACACATTTG
                                         cttctgt  CT-rich tract
                     ttttgtat  TA-rich tract