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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTACAAGCCAAGAAACAAGTCTTGCCACAAGTTGCCGAAGAGTATATGCTCATGCACATGACTACCATATAAATTCGATATCAAATAACAGgtcctgcacatatattcatttgaatgtatcatagctaacgttcaaggttttcagctactgaatttggatatggaaatttttagttctaaattttttgctt...

Basic information

species Zea mays
transcript GRMZM2G164185_T02
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G164185_T02 (Zea mays), 5'ss of exon 6
lower sequence: LOC_Os01g41630.1 (Oryza sativa), 5'ss of exon 6
GTTACAAGCCAAGAAACAAGTCTTGCCACAAGTTGCCGAAGAGTATATGCTCATGCACATGACTACCATATAAATTCGATATCAAATAACAGgtcctgcac-------atatattcatttgaatgtatcatagctaacgttcaaggttttcagctactgaatttggatatggaaatttttagttctaaattttttgctt
|||||||||||||||||||||||| |  |||||||||||||||| | | | ||||||||||||||||||||||| || || |||||||||||||| |  ||       || | || ||||   ||||| |||| ||   ||  |  || |  |||| ||||| ||   | ||  |||   || || ||||   |     
GTTACAAGCCAAGAAACAAGTCTTTCTGCAAGTTGCCGAAGAGTCTTTACGCATGCACATGACTACCATATAAACTCTATTTCAAATAACAGgtcttctacattattaatttttttatttagttgtataatagatattatttgaacttgtt-gctattgaatatgaccacggccatt---agctccaaatgagtgt---

upper sequence: GRMZM2G164185_T02 (Zea mays), 5'ss of exon 6
lower sequence: GLYMA07G01440.1 (Glycine max), 5'ss of exon 6
GTTACAAGCCAAGAAACAAGTCTTGCCACAAGTTGCCGAAGAGTATATGCTCATGCACATGACTACCATATAAATTCGATATCAAATAACAGgtcctgc---acatatattcatttgaatgtatcatagctaacgttcaa----ggttttcagcta-ctgaatttggatatggaaatttttagttctaaattttttgctt
|| || ||||| || || ||| | |   |  | || || ||||||||||| ||||| ||||| || ||||| ||||| || |||||||||||||  |     || |  |    |   | | ||   |    |  ||  ||    | ||||  | || ||  |||||  |      | | ||  ||  ||| |        
GTAACCAGCCATGAGACCAGTTTGGTGGCTCGATGTCGTAGAGTATATGCCCATGCTCATGATTATCATATTAATTCTATTTCAAATAACAGgtgatttgaaaccttgagggttcctattttaggctgttcagtgtggaatcttgctttttggttatctttatttgttttaacgtagtgttgatttgaaagt--------

upper sequence: GRMZM2G164185_T02 (Zea mays), 5'ss of exon 6
lower sequence: GLYMA08G20830.4 (Glycine max), 5'ss of exon 6
GTTACAAGCCAAGAAACAAGTCTTGCCACAAGTTGCCGAAGAGTATATGCTCATGCACATGACTACCATATAAATTCGATATCAAATAACAGgtcctgcacatatattcatttgaatgtatcatagctaacgttcaaggttttcagctactgaatttggatatggaaatttttagttctaaattttttgctt------
|| || ||||| || || ||| |     |  | ||||| ||||||||||| ||||| ||||| || ||||| ||||| || |||||||||||||         |   ||    |    ||| ||||     |||||  ||       | ||   ||||| |||    |||| |  |  |  | | ||   ||      
GTAACCAGCCATGAGACCAGTTTGATGGCTCGATGCCGTAGAGTATATGCCCATGCTCATGATTATCATATTAATTCTATTTCAAATAACAGgt--gatttgaaacctcgagggttcctataatagtc--tgttcagtgtcaaatcttgct--ttttggttatctttatttcttttattgtagtgttgatttgaaagt

upper sequence: GRMZM2G164185_T02 (Zea mays), 5'ss of exon 6
lower sequence: AT1G51690.3 (Arabidopsis thaliana), 5'ss of exon 8
GTTACAAGCCAAGAAACAAGTCTTGCCACAAGTTGCCGAAGAGTATATGCTCATGCACATGACTACCATATAAATTCGATATCAAATAACAGgtcctgcacatatattcatttgaatgtatcatagctaacgttcaaggttttcagctactgaatttggatatggaaattttta-------gttctaaattttttgctt
|| || ||||| ||  | || | ||   | || || |||||||||||||||||||| ||||| || ||||| ||||| || |||||||||||||   |   ||  |  |||| ||||  | | |   |     | |    |  || || ||  |||||       ||| ||  |         | ||| |  | ||   
GTAACTAGCCATGAGTCGAGCCCTGTGGCTAGATGTCGAAGAGTATATGCTCATGCTCATGATTATCATATTAATTCAATCTCAAATAACAGgt--aggttattcacccattggaattcaacttgcttccttctta---ctagcaactgctttatttgtccgcaaaaaattcaatgatgtcactataagtcgtctga--

upper sequence: GRMZM2G164185_T02 (Zea mays), 5'ss of exon 6
lower sequence: AT1G17720.2 (Arabidopsis thaliana), 5'ss of exon 6
GTTACAAGCCAAGAAACAAGTCTTGCCACAAGTTGCCGAAGAGTATATGCTCATGCACATGACTACCATATAAATTCGATATCAAATAACAGgt---cctgcacatatattcatttgaatgtatcatagctaacgttcaaggttttcagctactgaatttggatatggaaatttttagttctaaattttttgctt
||||| ||||| || || |  ||||   | || ||||||||||| ||||| ||||| ||||| |||||||| ||||| || || |||| |||||   | |   | ||  ||       | ||   ||   | ||  |  |  | |      ||    ||| | | |     |  ||| || |    | |  |   
GTTACCAGCCAGGAGACTAACCTTGTGGCTAGATGCCGAAGAGTGTATGCCCATGCTCATGATTACCATATTAATTCAATCTCCAATAGCAGgtaatcgttttcctaagttttccctcaggttatatgttttactcttgatatctctt-taacacgtttttgctgtctttctccttaatttttccatctcagg--

upper sequence: GRMZM2G164185_T02 (Zea mays), 5'ss of exon 6
lower sequence: Vv04s0008g00840.t01 (Vitis vinifera), 5'ss of exon 6
GTTACAAGCCAAGAAACAAGTCTTGCCACAAGTTGCCGAAGAGTATATGCTCATGCACATGACTACCATATAAATTCGATATCAAATAACAGgtcctgcacatatattcatttgaatgtatcatagctaacgttcaaggttttcagctactgaatttggatatggaaatttttagttctaaattttttgctt--
|| |  || || || |||||    |   | || || || ||| | ||||||||||| |||||||| ||||| ||||| || ||||||||||||| |  | || ||||    |||||  |||           ||  | | |||    ||| | || |   | |    || | | |   |  |||  |   |   
GTGATGAGTCATGAGACAAGCTCAGTGGCCAGGTGTCGGAGAATTTATGCTCATGCCCATGACTATCATATCAATTCCATTTCAAATAACAGgtgc-actcacatatcttgttgaacatattcctctactttttgtatgatttgtattacagcatgtcc-tgtttttatatattggcatgtattcctaattgga

upper sequence: GRMZM2G164185_T02 (Zea mays), 5'ss of exon 6
lower sequence: Vv11s0016g02550.t01 (Vitis vinifera), 5'ss of exon 6
GTTACA-AGCCAAGAAACAAGTCTTGCCACAAGTTGCCGAAGAGTATATGCTCATGCACATGACTACCATATAAATTCGATATCAAATAACAGgtcctgcacatatattcatttgaatgtatcatagctaacgttcaaggttttcagctactgaatttggatatggaaatttttagttctaaattttttgctt
  |||| ||| | |||||||| ||  |  | || || |||||| ||||||||||||| |||||||| ||||| ||||| || ||||| |||||||        ||  |   | |   | | | |    | |  || ||   | |  | |     ||||  || |       | | |   | |   |    |||
-GTACACAGCAATGAAACAAGCCTATCAGCTAGATGTCGAAGAATATATGCTCATGCTCATGACTATCATATCAATTCCATTTCAAACAACAGgtgaattctttaattggttataggtttttaaatttttatcttgaatcatatttgttgacttatttcaatttcctttcatgttggatttagcatcaaactt

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|91057148|gb|EB167566.1|EB167566
EST:     GTATATGCTCATGCACATGACTACCATATAAATTCGATATCAAATAACAG                         TGATGGTGAGACATTTATATCAGCTGATGATTTGCGGATAAATCTATGGAA
genomic: GTATATGCTCATGCACATGACTACCATATAAATTCGATATCAAATAACAGgtcctgcaca ... atttcaacagTGATGGTGAGACATTTATATCAGCTGATGATTTGCGGATAAATCTATGGAA
EST: gi|67032341|gb|CO461090.1|CO461090
EST:     GTATATGCTCATGCACATGACTACCATATAAATTCGATATCAAATAACAG                         TGATGGTGAGACATTTATATCAGCTGATGATTTGCGGATAAATCTATGGAA
genomic: GTATATGCTCATGCACATGACTACCATATAAATTCGATATCAAATAACAGgtcctgcaca ... atttcaacagTGATGGTGAGACATTTATATCAGCTGATGATTTGCGGATAAATCTATGGAA
EST: gi|31356630|gb|CD440987.1|CD440987
EST:     GTATATGCTCATGCACATGACTACCATATAAATTCGATATCAAATAACAG                         TGATGGTGAGACATTTATATCAGCTGATGATTTGCGGATAAATCTATGGAA
genomic: GTATATGCTCATGCACATGACTACCATATAAATTCGATATCAAATAACAGgtcctgcaca ... atttcaacagTGATGGTGAGACATTTATATCAGCTGATGATTTGCGGATAAATCTATGGAA