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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGGCCAGCAAGGCTCATATCCAATTAAGCTATTCTACACTTCAAACATGCCCATCATTCTGCACTCTGCACTGATTACCAACCTCTATTTCATATCCCAGgtacgcacctcatttccaatgctgtagtaagtcatgtcttctgtgtgtatgtgtaaatgctgatgtattttattgctatcacag

Basic information

species Zea mays
transcript GRMZM2G073498_T03
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G073498_T02 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os03g11440.1 (Oryza sativa), 5'ss of exon 4
TGGCCAGCAAGGCTCATATCCAATTAAGCTATTCTACACTTCAAACATGCCCATCATTCTGCACTCTGCACTGATTACCAACCTCTATTTCATATCCCAGgtacgcacctcatttccaatgctgtagtaagtcatgtcttctgtgtgtatgtgtaaatgctgatgtattt-tattgctatcacag
 || || ||||||||||| ||||||||||| |||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||  | || ||| ||||| |||| ||| |||  |  ||||   ||| | ||| ||     | |  | ||| ||||||| |  |||
CGGTCAACAAGGCTCATACCCAATTAAGCTGTTCTACACTTCAAACATGCCCATCATTCTGCATTCTGCACTGATTACCAACCTCTATTTCATATCCCAGgtctgaacttcaattccactgctttagcaagataaatctttaatgtttgtgtttag-cattaacatgtttgtattgctttggcag

upper sequence: GRMZM2G073498_T02 (Zea mays), 5'ss of exon 3
lower sequence: Vv00s0551g00030.t01 (Vitis vinifera), 5'ss of exon 1
TGGCCAGCAAGGCTCATATCCAATTAAGCTATTCTACACTTCAAACATGCCCATCATTCTGCACTCTGCACTGATTACCAACCTCTATTTCATATCCCAGgtacgcacctcatttccaatgctgta---gtaagtcatgtcttctgtgtgtatgtgtaaatgctgatgtattttattgctatcacag
||| ||||| || |||||||| || ||||| |||||||| || ||||||||||||||||| || ||||| ||  |||||||||| || || |||||||||||||       |  |  ||   ||||     | ||   |     | | |    |||| | | || |   |||||||| |  | ||||
TGGACAGCAGGGTTCATATCCTATCAAGCTGTTCTACACCTCCAACATGCCCATCATTCTACAGTCTGCTCTTGTTACCAACCTATACTTTATATCCCAGgtac----tggagctttaagcttgtatacacaggttggggtcattttcttctggtgtta-tactaaca-attttatttc--ttacag

upper sequence: GRMZM2G073498_T02 (Zea mays), 5'ss of exon 3
lower sequence: Vv18s0076g00240.t01 (Vitis vinifera), 5'ss of exon 1
TGGCCAGCAAGGCTCATATCCAATTAAGCTATTCTACACTTCAAACATGCCCATCATTCTGCACTCTGCACTGATTACCAACCTCTATTTCATATCCCAGgtacgcacctcatttccaatgctgta---gtaagtcatgtcttctgtgtgtatgtgtaaatgctgatgtattttattgctatcacag
||| || ||||| |||||||| |||||| | |||||||| || ||||||||||||||||| || | ||| ||  || ||||| | || || |||||| ||||||     | |  |  ||   ||||    | | |         | | |    |||| | | || |   |||||||| |  | | ||
TGGACAACAAGGTTCATATCCTATTAAGTTGTTCTACACCTCCAACATGCCCATCATTCTACAATTTGCTCTTGTTTCCAACATTTACTTTATATCCTAGgtac----ttgagctttaagcttgtatacatgaattgcagtcattttcttctggtgtta-tactaaca-attttatttc--ttatag

upper sequence: GRMZM2G073498_T02 (Zea mays), 5'ss of exon 3
lower sequence: Vv19s0014g01020.t01 (Vitis vinifera), 5'ss of exon 4
TGGCCAGCAAGGCTCATATCCAATTAAGCTATTCTACACTTCAAACATGCCCATCATTCTGCACTCTGCACTGATTACCAACCTCTATTTCATATCCCAGgtacgcacctcatttccaatgctgta---gtaagtcatgtcttctgtgtgtatgtgtaaatgctgatgtattttattgctatcacag
||| ||||| || |||||||| |||||||| |||||||| || ||||||||||||||| | || ||||| ||  || ||||||| || || |||||||||||||     | |  |  ||   ||||    | |||   |     | | |    |||| | | || |   |||||||| |  | ||||
TGGACAGCAGGGTTCATATCCTATTAAGCTGTTCTACACCTCCAACATGCCCATCATTTTACAGTCTGCTCTTGTTTCCAACCTTTACTTTATATCCCAGgtac----ttgagctttaagcttgtatacatgagttgcggtcattttcttctggtgtta-tactaaca-attttatttc--ttacag

upper sequence: GRMZM2G073498_T02 (Zea mays), 5'ss of exon 3
lower sequence: PP1S323_56V6.1 (Physcomitrella patens), 5'ss of exon 4
TGGCCAGCAAGGCTCATATCCAATTAAGCTATTCTACACTTCAAACATGCCCATCATTCTGCACTCTGCACTGATTACCAACCTCTATTTCATATCCCAGgtac---------gcacctcatttccaatgc-tgtagtaagtcatgtcttctgtg-tgt-atgtgtaaatgctgatgtatt----ttattgctatcacag-------------------------------------
||| || ||||| || ||||| || || ||||||||||| || ||||||||||||||||| ||   ||| ||  |  ||||| | || ||||| || ||||||          |   ||  | | ||||   |  ||   |  || ||||  |   ||  | || |   ||   |||  ||    | |||    ||   |                                     
TGGTCAACAAGGATCTTATCCTATCAAACTATTCTACACCTCCAACATGCCCATCATTCTTCAGAGTGCCCTCGTATCCAACTTGTACTTCATTTCACAGgtattttttttctgttacttgtcttcaatctatacagcttgcaatttctttagcaatgcgaagtatcgttgtcaatggtttcaactcattaacttcttggaattaattaaaattcaaaagacttgtcgtcttttcag

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|6964762|gb|AW433455.1|AW433455
EST:     CCATCATTCTGCACTCTGCACTGATTACCAACCTCTATTTCATATCCCAG                         CTTCTCTACAGGAAGTAC
genomic: CCATCATTCTGCACTCTGCACTGATTACCAACCTCTATTTCATATCCCAGgtacgcacct ... gctatcacagCTTCTCTACAGGAAGTAC
EST: gi|211338836|gb|FL045913.1|FL045913
EST:     CCATCATTCTGCACTCTGCACTGATTACCAACCTCTATTTCATATCCCAG                         CTTCTCTACAGGAAGTACAGTGGAAACTTCCTTGTTAACCTTCTTGGGATG
genomic: CCATCATTCTGCACTCTGCACTGATTACCAACCTCTATTTCATATCCCAGgtacgcacct ... gctatcacagCTTCTCTACAGGAAGTACAGTGGAAACTTCCTTGTTAACCTTCTTGGGATG