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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaattacagctaattttttgcagtgatctgttgtgatcttccattgcgtatggcttactgttcacaatgcaatcattcagGCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATATCATGATCCACCTGCTGGTGTTCAG

Basic information

species Zea mays
transcript GRMZM2G158479_T04
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G158479_T04 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os05g23620.1 (Oryza sativa), 3'ss of exon 5
gtaattacagctaattt--tttgcagtgatctgttgtgatcttccattgc----gtatggcttactgttcacaatgcaatcattcagGCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATATCATGATCCACCTGCTGGTGTTCAG
||||| | |  | ||    || ||  ||   |||| | ||||||||         | |   ||||||||   | | |     ||||||||||||||||||| ||||||||||| || |||||||||||||| || | |||||||||||| |||||||||
gtaatgatattttatgccattggcgttgcattgtt-taatcttccaccttcaagttgtaatttactgtttg-actccgtatgttcagGCAAGGCACAATGGCCAGAACTATGTGTTTGCTCTTCTTACTGGTTACCGTGATCCACCTGCCGGTGTTCAG

upper sequence: GRMZM2G158479_T04 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os05g23620.4 (Oryza sativa), 3'ss of exon 4
gtaattacagctaattt--tttgcagtgatctgttgtgatcttccatt----gcgtatggcttactgttcacaatgcaatcattcagGCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATATCATGATCCACCTGCTGGTGTTCAG----------------------------
||||| | |  | ||    || ||  ||   |||| | ||||||||         | |   ||||||||   | | |     ||||||||||||||||||| ||||||||||| || |||||||||||||| || | |||||||||||| |||||||||                            
gtaatgatattttatgccattggcgttgcattgtt-taatcttccaccttcaagttgtaatttactgtttg-actccgtatgttcagGCAAGGCACAATGGCCAGAACTATGTGTTTGCTCTTCTTACTGGTTACCGTGATCCACCTGCCGGTGTTCAGGTAAATCTCATTCTCTGTCAGTTATACC

upper sequence: GRMZM2G158479_T04 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA16G06700.1 (Glycine max), 3'ss of exon 5
gtaattacagctaattttttgcagtgatctgttgtgatcttccattgcgtatg-gcttactgttcacaa---tgcaatcattcagGCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATATCATGATCCACCTGCTGGTGTTCAG
|||||   |  || ||  | | | || ||| |||  || ||| | ||  | |   | |    |  | |    ||  ||  |||||||  | ||||||||||||||||||||||| || ||||| ||||| |||| ||| |||||||||||||||  |
gtaatgctaattatttgatagtaatg-tct-ttggaattttctaatgtatgtctacctgaaatatatatccttgtgatttttcagGCCCGTCACAATGGTCAGAACTATGTTTTTGCCCTTCTGACTGGTTATCGTGACCCACCTGCTGGTGTTTCG

upper sequence: GRMZM2G158479_T04 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA05G07020.1 (Glycine max), 3'ss of exon 4
gtaattacagctaattttttgcagtgatctgttgtgatcttccattgcgtatggcttactgttcacaatgc----aatcattcagGCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATATCATGATCCACCTGCTGGTGTTCAG
||||| |  | || | |  |  ||| |  | ||  ||| |||  |||| | |   | |    | |   | |    |||  |||||||  | |||||||||||||||||||| || || ||||| ||||| |||| ||| || ||||||||||||  |
gtaatgagtg-tagtctgct--agtaacgtctttagattttcttttgcttttatatcataaataattttacccttaatgtttcagGCTCGTCACAATGGTCAGAACTATGTGTTTGCACTTCTAACTGGTTATCGTGACCCTCCTGCTGGTGTTTCG

upper sequence: GRMZM2G158479_T04 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA19G24620.2 (Glycine max), 3'ss of exon 4
gtaattacagctaattttttgcagtgatctgttgtgatcttccattgcgtat--ggcttactgttcacaa---tgcaatcattcagGCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATATCATGATCCACCTGCTGGTGTTCAG
|||||   |  || ||  | | | | |||| |||  || ||| | ||  | |    || |   |  | |    |   ||  |||||||  | ||||||||||||||||||||||| || ||||| ||||| |||| ||| |||||||||||||||   
gtaatgctaattatttgatagtaat-atct-ttgaaattttctaatgtatgtctacctgaaaatatatatccttttgatttttcagGCCCGTCACAATGGTCAGAACTATGTTTTTGCCCTTCTAACTGGTTATCGTGACCCACCTGCTGGTGTTTCA

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|31356708|gb|CD441065.1|CD441065
EST:     GGTTTGCTAATGGTGGTGCATACCCTCCGGACCTTAGTCTCATCACAAAG                         GCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATATCAT
genomic: GGTTTGCTAATGGTGGTGCATACCCTCCGGACCTTAGTCTCATCACAAAGgtaattacag ... aatcattcagGCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATATCAT
EST: gi|67028963|gb|CO457712.1|CO457712
EST:     GGTTTGCTAATGGTGGTGCATACCCTCCGGACCTTAGTCTCATCACAAAG                         GCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATATCAT
genomic: GGTTTGCTAATGGTGGTGCATACCCTCCGGACCTTAGTCTCATCACAAAGgtaattacag ... aatcattcagGCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATATCAT
EST: gi|16379087|gb|BI992745.1|BI992745
EST:     GGTTTGCTAATGGTGGTGCATACCCTCCGGACCTTAGTCTCATCACAAAG                         GCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATATCAT
genomic: GGTTTGCTAATGGTGGTGCATACCCTCCGGACCTTAGTCTCATCACAAAGgtaattacag ... aatcattcagGCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATATCAT
EST: gi|5055406|gb|AI734293.1|AI734293
EST:     GGTTTGCTAATGGTGGTGCATACCCTCCGGACCTTAGTCTCATCACAAAG                         GCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATATCAT
genomic: GGTTTGCTAATGGTGGTGCATACCCTCCGGACCTTAGTCTCATCACAAAGgtaattacag ... aatcattcagGCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATATCAT
EST: gi|15323508|gb|BI478611.1|BI478611
EST:     GGTTTGCTAATGGTGGTGCATACCCTCCGGACCTTAGTCTCATCACAAAG                         GCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATATCAT
genomic: GGTTTGCTAATGGTGGTGCATACCCTCCGGACCTTAGTCTCATCACAAAGgtaattacag ... aatcattcagGCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATATCAT
EST: gi|60338899|gb|DN205872.1|DN205872
EST:     GGTTTGCTAATGGTGGTGCATACCCTCCGGACCTTAGTCTCATCACAAAG                         GCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATATCAT
genomic: GGTTTGCTAATGGTGGTGCATACCCTCCGGACCTTAGTCTCATCACAAAGgtaattacag ... aatcattcagGCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATATCAT
EST: gi|211036752|gb|FL261404.1|FL261404
EST:     GGTTTGCTAATGGTGGTGCATACCCTCCGGACCTTAGTCTCATCACAAAG                         GCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATATCAT
genomic: GGTTTGCTAATGGTGGTGCATACCCTCCGGACCTTAGTCTCATCACAAAGgtaattacag ... aatcattcagGCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATATCAT
EST: gi|74245922|gb|DT653836.1|DT653836
EST:     GGTTTGCTAATGGTGGTGCATACCCTCCGGACCTTAGTCTCATCACAAAG                         GCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATATCAT
genomic: GGTTTGCTAATGGTGGTGCATACCCTCCGGACCTTAGTCTCATCACAAAGgtaattacag ... aatcattcagGCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATATCAT
EST: gi|16919521|gb|BM074230.1|BM074230
EST:     TAGTCTCATCACAAAG                         GCAAGGCACAATGGTCAGAACTATGGTTTTCGCTCTTCTAACTGGATATCA
genomic: TAGTCTCATCACAAAGgtaattacag ... aatcattcagGCAAGGCACAATGGTCAGAACTAT-GTTTTCGCTCTTCTTACTGGATATCA
EST: gi|15590213|gb|BI674829.1|BI674829
EST:     GGTTTGCTAATGGTGGTGCATACCCTCCGGACCTTAGTCTCATCACAAAG                         GCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATATCAT
genomic: GGTTTGCTAATGGTGGTGCATACCCTCCGGACCTTAGTCTCATCACAAAGgtaattacag ... aatcattcagGCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATATCAT
EST: gi|31356905|gb|CD441262.1|CD441262
EST:     GGTTTGCTAATGGTGGTGCATACCCTCCGGACCTTAGTCTCATCACAAAG                         GCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATATCAT
genomic: GGTTTGCTAATGGTGGTGCATACCCTCCGGACCTTAGTCTCATCACAAAGgtaattacag ... aatcattcagGCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATATCAT
EST: gi|60396397|gb|DN229266.1|DN229266
EST:     GGTTTGCTAATGGTGGTGCATACCCTCCGGACCTTAGTCTCATCACAAAG                         GCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATATCAT
genomic: GGTTTGCTAATGGTGGTGCATACCCTCCGGACCTTAGTCTCATCACAAAGgtaattacag ... aatcattcagGCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATATCAT
EST: gi|14243082|gb|BG840790.2|BG840790
EST:     GGTTTGCTAATGGTGGTGCATACCCTCCGGACCTTAGTCTCATCACAAAG                         GCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATATCAT
genomic: GGTTTGCTAATGGTGGTGCATACCCTCCGGACCTTAGTCTCATCACAAAGgtaattacag ... aatcattcagGCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATATCAT
EST: gi|149097934|gb|EE183875.2|EE183875
EST:     GGTTTGCTAATGGTGGTGCATACCCTCCGGACCTTAGTCTCATCACAAAG                         GCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATATCAT
genomic: GGTTTGCTAATGGTGGTGCATACCCTCCGGACCTTAGTCTCATCACAAAGgtaattacag ... aatcattcagGCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATATCAT
EST: gi|6012601|gb|AW062038.1|AW062038
EST:     GGTTTGCTAATGGTGGTGCATACCCTCCGGACCTTAGTCTCATCACAAAG                         GCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATATCAT
genomic: GGTTTGCTAATGGTGGTGCATACCCTCCGGACCTTAGTCTCATCACAAAGgtaattacag ... aatcattcagGCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATATCAT
EST: gi|31354314|gb|CD438671.1|CD438671
EST:     GGTTTGCTAATGGTGGTGCATACCCTCCGGACCTTAGTCTCATCACAAAG                         GCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATATCAT
genomic: GGTTTGCTAATGGTGGTGCATACCCTCCGGACCTTAGTCTCATCACAAAGgtaattacag ... aatcattcagGCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATATCAT
EST: gi|78075104|gb|DV503538.1|DV503538
EST:     GGTTTGCTAATGGTGGTGCATACCCTCCGGACCTTAGTCTCATCACAAAG                         GCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATATCAT
genomic: GGTTTGCTAATGGTGGTGCATACCCTCCGGACCTTAGTCTCATCACAAAGgtaattacag ... aatcattcagGCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATATCAT
EST: gi|40303643|gb|CK348030.1|CK348030
EST:     GGTTTGCTAATGGTGGTGCATACCCTCCGGACCTTAGTCTCATCACAAAG                         GCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATATCAT
genomic: GGTTTGCTAATGGTGGTGCATACCCTCCGGACCTTAGTCTCATCACAAAGgtaattacag ... aatcattcagGCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATATCAT
EST: gi|211323658|gb|FL286664.1|FL286664
EST:     GGTTTGCTAATGGTGGTGCATACC-TCCGGACCTTAGTCTCATCACAAAG                         GCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATATCAT
genomic: GGTTTGCTAATGGTGGTGCATACCCTCCGGACCTTAGTCTCATCACAAAGgtaattacag ... aatcattcagGCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATATCAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atctgttgtgatcttccattgcgtatggcttactgttcacaatgcaatcattcagGCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATATCATGATCCACCTGCTGGTGTTCAG
                          ggcttac  putative branch site (score: 3)
                                             aatcatt  TA-rich tract