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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagcaccaagcatcatagtacacaaattgccttttctagcaatgtgttatactttaaactgtagagctaattgctacggtcatgtgttcagCTGCTGTGGGGCTCTCCTTTATGCAGTTCACCAACATGAACTCGATGCGCAATCTCTTCATCATCGGTGTCTCACTCTTCCTGGGTTTATCTATACCAGA

Basic information

species Zea mays
transcript GRMZM2G100484_T03
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G100484_T03 (Zea mays), 3'ss of exon 11
lower sequence: LOC_Os09g15170.1 (Oryza sativa), 3'ss of exon 12
gtaagca--ccaagcatcatagtacacaaattgccttttctagcaatgtgttatactttaaactgtagagctaattgctacggtcatgtgttcagCTGCTGTGGGGCTCTCCTTTATGCAGTTCACCAACATGAACTCGATGCGCAATCTCTTCATCATCGGTGTCTCACTCTTCCTGGGTTTATCTATACCAGA
|||||||  |||| ||| | |  ||| ||||    |||| | ||  | |   ||   || || || | ||   | |  |    |  ||| ||||||||||||||| || |||||| |||| ||||||||||||||||| |||||||| ||||||||  | |||||||| ||||| || || ||||| ||||||||
gtaagcagcccaaacat-acatgaca-aaatgattttttttcgctttttaa-atgtatttaa-tggacagtacactcattttattgtgtcttcagCTGCTGTGGGACTATCCTTTTTGCAATTCACCAACATGAACTCAATGCGCAACCTCTTCATTGTTGGTGTCTCCCTCTTTCTTGGCTTATCAATACCAGA

upper sequence: GRMZM2G100484_T03 (Zea mays), 3'ss of exon 11
lower sequence: Vv10s0003g01460.t01 (Vitis vinifera), 3'ss of exon 12
gtaagcaccaagcatcatagtacacaaattgccttttctagcaatgtgttatactttaaactgtagagctaattgctacggtcatgtgttcagCTGCTGTGGGGCTCTCCTTTATGCAGTTCACCAACATGAACTCGATGCGCAATCTCTTCATCATCGGTGTCTCACTCTTCCTGGGTTTATCTATACCAGA
          || || |   | ||| | ||   |||  |  |  | |  |  |||||  | | | | | |      ||   |  ||  ||||||| |||||||||| || ||| |||| || || ||||||||||| ||| | || ||||||||||  |||||  |  ||||||||||||| || || || ||
-------gtgagtattagtat-cactattttgttttgattcctgtattcttaactttgcaatttggtggttgaatatatactgttgctttcagCTTCTGTGGGGCTATCATTTTTGCAATTTACAAACATGAACTCAATGAGGAACCTCTTCATCACGGGTGTGGCTTTCTTCCTGGGTTTGTCCATTCCTGA
















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|50334184|gb|CO529310.1|CO529310
EST:     TCCTTTCACAATATTCGCTGCCATTTACTGCGTTATGTTTGGAATTGTCG                         CTGCTGTGGGGCTCTCCTTTATGCAGTTCACCAACATGAACTCGATGCGCA
genomic: TCCTTTCACAATATTCGCTGCCATTTACTGCGTTATGTTTGGAATTGTCGgtaagcacca ... atgtgttcagCTGCTGTGGGGCTCTCCTTTATGCAGTTCACCAACATGAACTCGATGCGCA
EST: gi|89763225|gb|DY690516.1|DY690516
EST:     AATATTGGCTTCCATTTACTGCGTTATGTTTGGAATTGTCG                         CTGCTGGGGGGCTGTCCTTTATGCAGTTCACCAACATGAACTCGGTGCGCA
genomic: AATATTCGCTGCCATTTACTGCGTTATGTTTGGAATTGTCGgtaagcacca ... atgtgttcagCTGCTGTGGGGCTCTCCTTTATGCAGTTCACCAACATGAACTCGATGCGCA
EST: gi|60398289|gb|DN231105.1|DN231105
EST:     TCCTTTCACAATATTCGCTGCCATTTACTGCGTTATGTTTGGAATTGTCG                         CTGCTGTGGGGCTCTCCTTTATGCAGTTCACCAACATGAACTCGATGCGCA
genomic: TCCTTTCACAATATTCGCTGCCATTTACTGCGTTATGTTTGGAATTGTCGgtaagcacca ... atgtgttcagCTGCTGTGGGGCTCTCCTTTATGCAGTTCACCAACATGAACTCGATGCGCA
EST: gi|50334185|gb|CO529311.1|CO529311
EST:     TCCTTTCACAATATTCGCTGCCATTTACTGCGTTATGTTTGGAATTGTCG                         CTGCTGTGGGGCTCTCCTTTATGCAGTTCACCAACATGAACTCGATGCGCA
genomic: TCCTTTCACAATATTCGCTGCCATTTACTGCGTTATGTTTGGAATTGTCGgtaagcacca ... atgtgttcagCTGCTGTGGGGCTCTCCTTTATGCAGTTCACCAACATGAACTCGATGCGCA
EST: gi|22545627|gb|BU097986.1|BU097986
EST:     TCCTTTCACAATATTCGCTGCCATTTACTGCGGTATGCTTGGAATTGTCG                         CTGCTGGGGGGCTCTCCTTTATGC
genomic: TCCTTTCACAATATTCGCTGCCATTTACTGCGTTATGTTTGGAATTGTCGgtaagcacca ... atgtgttcagCTGCTGTGGGGCTCTCCTTTATGC
EST: gi|26457048|gb|CA828631.1|CA828631
EST:     TCCTTTCACAATATTCGCTGCCATTTACTGCGTTATGTTTGGAATTGTCG                         CTGCTGTGGGGCTCTCCTTTATGCAGTTCACCAACAT
genomic: TCCTTTCACAATATTCGCTGCCATTTACTGCGTTATGTTTGGAATTGTCGgtaagcacca ... atgtgttcagCTGCTGTGGGGCTCTCCTTTATGCAGTTCACCAACAT
EST: gi|211271038|gb|FL034395.1|FL034395
EST:     TCCTTTCACAATATTCGCTGCCATTTACTGCGTTATGTTTGGAATTGTCG                         CTGCTGTGGGGCTCTCCTTTATGCAGTTCACCAACATGAACTCGATGCGCA
genomic: TCCTTTCACAATATTCGCTGCCATTTACTGCGTTATGTTTGGAATTGTCGgtaagcacca ... atgtgttcagCTGCTGTGGGGCTCTCCTTTATGCAGTTCACCAACATGAACTCGATGCGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tagcaatgtgttatactttaaactgtagagctaattgctacggtcatgtgttcagCTGCTGTGGGGCTCTCCTTTATGCAGTTCACCAACATGAACTCGATGCGCAATCTCTTCATCATCGGTGTCTCACTCTTCCTGGGTTTATCTATACCAGA
                            agctaat  putative branch site (score: 3)
        tgttatactttaaa  TA-rich tract