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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatacaaactccttatggacaattgtcaggaaactcaagaaagaatctaacatatcatttttaattgcattgtacagCAACTTTTGTTCTTCATCATCCGGAGCATGGTCATGCAGTTGCACATCCAATTCTTTCACGCATCATAGATGGGACGCTGTGCTATGATAGACATGGTCC

Basic information

species Zea mays
transcript GRMZM2G107101_T05
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G107101_T05 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os01g08700.1 (Oryza sativa), 3'ss of exon 5
gtaatacaaactccttatggacaattgt----caggaaactcaagaaagaatctaacatatcatttttaattgcattgtacagCAACTTTTGTTCTTCATCATCCGGAGCATGGTCATGCAGTTGCACATCCAATTCTTTCACGCATCATAGATGGGACGCTGTGCTATGATAGACATGGTCC
|||||   | |   | ||  | |  |||    ||   || | |||||||| | | ||||||  || | |     ||| | ||||||||||||||||||||||||| |||||||| ||||||||||  ||||| ||||| |||||||||||||||||||| ||  | ||||||||| |||||  
gtaatttgatccagtgatcaatacatgttccacaaacaattgaagaaagagtttgacatatttttctca----tatt-tccagCAACTTTTGTTCTTCATCATCCTGAGCATGGCCATGCAGTTGTGCATCCGATTCTGTCACGCATCATAGATGGGACACTCAGTTATGATAGAAATGGTTT

upper sequence: GRMZM2G107101_T05 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA10G36600.1 (Glycine max), 3'ss of exon 4
-------------------------------gtaatacaaactccttatggaca--attgtcagga---aactcaagaaagaatctaacatatcatttttaattgcat-tgta----cagCAACTTTTGTTCTTCATCATCCGGAGCATGGTCATGCAGTTGCACATCCAATTCTTTCACGCATCATAGATGGGACGCTGTGCTATGATAGACATGGTCC
                                ||  |   ||||   ||  | |   ||  || ||   |  || |       | ||| |  |  ||| |  || ||  ||||     ||| || ||||| ||||||||||| |||||||| ||||||||||  | ||||||| ||||| | || || ||||| || ||   ||||||||    | ||||
gtatttatgctctatcccatgtcagtttaacttatgattgactcaacataaatatggttaccatgatttatttctattttatttgtaataacttctttatgttttcacatgtaaatctagCGACATTTGTCCTTCATCATCCAGAGCATGGGCATGCAGTTGTGCTTCCAATTATTTCATGTATTATTGATGGTACACTAGTCTATGATAAGGCTAGTCC

upper sequence: GRMZM2G107101_T05 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA09G07240.1 (Glycine max), 3'ss of exon 4
----------------------gtaatacaaactcc--ttatggacaattgtcaggaaactcaagaaagaatct------aacatatcattt--ttaattgcat---tgtacagCAACTTTTGTTCTTCATCATCCGGAGCATGGTCATGCAGTTGCACATCCAATTCTTTCACGCATCATAGATGGGACGCTGTGCTATGATAGACATGGTCC--------------------------
                       || ||  |  | |  |||||    | |     | |||| | ||     |||      || |  | ||||  | | |  |||     | ||||     |||||||||||||||| ||||| || ||||||||||  | ||||||| ||||| | || || ||||| ||||||  ||||||||    | ||||                          
gtatagggtatttttgctttacttagtattagtttcaattatgatttactcaacagtaacttatgactatttcttgtccaaataactaatttattcattcacatgtacatccagcggtacttgttcttcatcatccagagCACGGGCATGCAGTTGTGCTTCCAATTATTTCATGTATTATTGATGGTACGCTGGACTATGATAAGACTAGTCCTCCATTTGCTTCTTTCATTTCTTTAG

upper sequence: GRMZM2G107101_T05 (Zea mays), 3'ss of exon 5
lower sequence: AT1G22770.1 (Arabidopsis thaliana), 3'ss of exon 3
--gtaatacaaactccttatggacaattgtcaggaaactcaagaaagaatctaacatatcatttttaattgcattgtacagCAACTTTTGTTCTTCATCATCCGGAGCATGGTCATGCAGTTGCACATCCAATTCTTTCACGCATCATAGATGGGACGCTGTGCTATGATAGACATGGTCC
   | ||  | | |  | ||  ||| || ||           ||| |  |||| |  ||  |  ||   || ||   ||||| |  ||||| |||||||||||||||||||||||||||||    | ||||||  ||||| |  | || |||||  || ||   ||    |   | | || 
gtatgatcaacatttatgatccacacttctctttttgtgtgtgaatg--tctatctgattttcgttttctg-atgaaacagCGATGTTTGTCCTTCATCATCCGGAGCATGGTCATGCAGTCATTCTTCCAATCATTTCATGTCTTATTGATGGCTCGTTGGTGTACAGCAAGGAAGCTCA

upper sequence: GRMZM2G107101_T05 (Zea mays), 3'ss of exon 5
lower sequence: Vv18s0157g00020.t01 (Vitis vinifera), 3'ss of exon 5
-----------------------------------gtaatacaaactccttatggacaattgtcaggaaactcaagaaagaatctaacatatcatttttaattg----cattgtacagCAACTTTTGTTCTTCATCATCCGGAGCATGGTCATGCAGTTGCACATCCAATTCTTTCACGCATCATAGATGGGACGCTGTGCTATGATAGACATGGTCC
                                    | ||| ||  |  ||||   | | | |  | |   || |  ||     ||     |   || |||||     || | | ||||||| |||||||||||||||||||| ||||| ||||| || |  | ||||||| ||||  | ||||| ||||| || |||   ||||||||   |  |||
gtattcatgtttttcaatgttgatatacctaaaaattgatataag-ttattattccctaatat--gaattttctatcaactgcatagtgacttccttataattaaaatcaattttcagCAACGTTTGTTCTTCATCATCCGGAACATGGGCATGCTGTCGTTCTTCCAATTATTTCGTGTATCATTGATGGTACACTGGTGTATGATAGGTGTACTCC

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|149079265|gb|EE168237.2|EE168237
EST:     TCAAAGTTCCTATCCATCAAAAGAAAATCGCTTGGTAGATGAAGTATTGG                         CAACTTTTGTTCTTCATCATCCGGAGCATGGTCATGCAGTTGCACATCCAA
genomic: TCAAAGTTCCTATCCATCAAAAGAAAATCGCTTGGTAGATGAAGTATTGGgtaatacaaa ... cattgtacagCAACTTTTGTTCTTCATCATCCGGAGCATGGTCATGCAGTTGCACATCCAA
EST: gi|32942831|gb|CF047650.1|CF047650
EST:     TCAAAGTTCCTATCCATCAAAAGAAAATCGCTTGGTAGATGAAGTATTGG                         CAACTTTTGTTCTTCATCATCCGGAGCATGGTCATGCAGTTGCACATCCAA
genomic: TCAAAGTTCCTATCCATCAAAAGAAAATCGCTTGGTAGATGAAGTATTGGgtaatacaaa ... cattgtacagCAACTTTTGTTCTTCATCATCCGGAGCATGGTCATGCAGTTGCACATCCAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgtcaggaaactcaagaaagaatctaacatatcatttttaattgcattgtacagCAACTTTTGTTCTTCATCATCCGGAGCATGGTCATGCAGTTGCACATCCAATTCTTTCACGCATCATAGATGGGACGCTGTGCTATGATAGACATGGTCC
                 aaagaatctaacatat  TA-rich tract