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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtatctagaaaaatcaaaatatcttgttatttggaatagagggagtaactagcagaaagagcctatgggatcacttatcatgtttttgttccatactcagCTATGGGATCTAAACATGAATTCAGGCCCTGTTTCAACCTTCCAAGTCCATGAACATTTAAGACCTAAG

Basic information

species Zea mays
transcript GRMZM2G165418_T01
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G165418_T02 (Zea mays), 3'ss of exon 10
lower sequence: LOC_Os06g36770.2 (Oryza sativa), 3'ss of exon 9
---gtatctagaaaaatcaaaatatcttgttatttggaatagagggagtaactagcagaaagagcCTATGGGATCACTTATCATGTTTTTGTTCCATACTCAGCTATGGGATCTAAACATGAATTCAGGCCCTGTTTCAACCTTCCAAGTCCATGAACATTTAAGACCTAAG
   | ||     |  || |  |||| |   |  ||  ||||  |  | |     | | |  |     ||  | |      | |  | | |||    | ||||||||||||||||||||||| ||||||| ||||||||||||||||| || |||||||||||||| || |||
tttgcatggcttatgatgagcatatttgacttgtt--aataaggtaaattttaggtaaagcggaataatttggtttgagttta-atatctgtcttttcctcagCTATGGGATCTAAACATGGATTCAGGTCCTGTTTCAACCTTCCAGGTTCATGAACATTTAAGGCCCAAG

upper sequence: GRMZM2G165418_T02 (Zea mays), 3'ss of exon 10
lower sequence: Vv09s0002g02470.t01 (Vitis vinifera), 3'ss of exon 9
--------gtatctagaaaaatcaaaatatcttgttatttggaatagagggagtaactagcagaaagagcCTATGGGATCACTTATCATGTTTTTGTTCCATACTCAGCTATGGGATCTAAACATGAATTCAGGCCCTGTTTCAACCTTCCAAGTCCATGAACATTTAAGACCTAAG
        | |||   |  |||  | || |     ||||||   |   ||    |  |||      || |       ||||||     |  ||||  |   |  |||| |||||||  | || ||| | |||||||| |||||||||||||| || |||||| ||||||||||||||
aggtctttgcatcacaaggaattgatatgt---actatttgtctttctggcttaagttagggccttgaact-----aatcactggaatttgttttacttgcttttcagTTATGGGACATTAATATGGACTCAGGCCCAGTTTCAACCTTCCAGGTTCATGAATATTTAAGACCTAAG
















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|211384024|gb|FL015619.1|FL015619
EST:     TTTCAAGGAATGGCAAATATATTCTTAGCCGNGATTATATGACGCTCAAG                         CTATGGGATCTAAACATGAATTCAGGCCC
genomic: TTTCAAGGAATGGCAAATATATTCTTAGCCGTGATTATATGACGCTCAAGgtgtgtagca ... ccatactcagCTATGGGATCTAAACATGAATTCAGGCCC
EST: gi|71419453|gb|DR804773.1|DR804773
EST:     TGGCAAATATATTCTTAGCCGTGATTATATGACGCTCAAG                         CTATGGGATCTAAACATGAATTCAGGCCCTGTTTCAACCTTCCAAGTCCAT
genomic: TGGCAAATATATTCTTAGCCGTGATTATATGACGCTCAAGgtgtgtagca ... ccatactcagCTATGGGATCTAAACATGAATTCAGGCCCTGTTTCAACCTTCCAAGTCCAT
EST: gi|24934206|gb|CA452424.1|CA452424
EST:     TTTCAAGGAATGGCAAATATATTCTTAGCCGTGATTATATGACGCTCAAG                         CTATGGGATCTAAACATGAATTCAGGCCCTGTTTCAACCTTCCAAGTCCAT
genomic: TTTCAAGGAATGGCAAATATATTCTTAGCCGTGATTATATGACGCTCAAGgtgtgtagca ... ccatactcagCTATGGGATCTAAACATGAATTCAGGCCCTGTTTCAACCTTCCAAGTCCAT
EST: gi|67025874|gb|CO454623.1|CO454623
EST:     TTTCAAGGGATGGCAAATATATTCTTAGCCGTGATTATATGACGCTCAAG                         CTATGGGATCTAAACATGAATTCAGGCCCTGTTTCAACCTTTCAAGTCCAT
genomic: TTTCAAGGAATGGCAAATATATTCTTAGCCGTGATTATATGACGCTCAAGgtgtgtagca ... ccatactcagCTATGGGATCTAAACATGAATTCAGGCCCTGTTTCAACCTTCCAAGTCCAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taactagcagaaagagcctatgggatcacttatcatgtttttgttccatactcagCTATGGGATCTAAACATGAATTCAGGCCCTGTTTCAACCTTCCAAGTCCATGAACATTTAAGACCTAAG
 gagtaac  putative branch site (score: 2)
                                     tttttgttcc  putative PPT
                                  atgttttt  TA-rich tract