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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTATGTTTTAGAGTCCGAACATATGAAGAAGTTCTTCGACTATATACAGCTTCCAAATTTTGACATAGCTTCTGATGCTTCTGCTACCTTTAAGgcgagttgtttcactttttacctttcagagtacttttcatatagtgtggtctaatctggtcatattatgcttttgtaagcag

Basic information

species Zea mays
transcript GRMZM2G351417_T01
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G351417_T02 (Zea mays), 5'ss of exon 4
lower sequence: LOC_Os07g39630.1 (Oryza sativa), 5'ss of exon 5
GTATGTTTTAGAGTCCGAACATATGAAGAAGTTCTTCGACTATATACAGCTTCCAAATTTTGACATAGCTTCTGATGCTTCTGCTACCTTTAAGgcgagttgtt-----tcactttttac----ctttcagagtacttttcatatagtgtggtctaatctggtcatattatgctt----ttgtaagcag-----
||| ||||||||||| || || |||||||||||||| ||||||||||| ||||||||||||||||| || || ||||||||||| |||||||||| || ||| |      | |  |  |      ||   | ||  | ||| | |  |     || || ||     ||||| ||     |  ||   ||     
GTACGTTTTAGAGTCTGACCACATGAAGAAGTTCTTTGACTATATACAACTTCCAAATTTTGACATTGCATCAGATGCTTCTGCGACCTTTAAGgtgatttgctgaagcccgccctgcaaaaagtttgttgggttttcttcctcttttcctaacttatatgcctgaattatactaagaatgttacataggttac

upper sequence: GRMZM2G351417_T02 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA09G01370.2 (Glycine max), 5'ss of exon 5
GTATGTTTTAGAGTCCGAACATATGAAGAAGTTCTTCGACTATATACAGCTTCCAAATTTTGACATAGCTTCTGATGCTTCTGCTACCTTTAAGgcgagttgtttcactttttacctttcagagtacttttcatatagtgtggtcta-atctggtcatattatgcttttgtaagcag-----------------
 |||||  |  | ||    | |||||||||||| || |||||||| || ||||||||||||||||| ||| | |||||| | || |||||||||| | ||  | |        || | | |    | ||| | |||  ||||   |  |     |   |    |    ||  |   |                 
ATATGTCCTGAACTCACCTCGTATGAAGAAGTTTTTTGACTATATCCAACTTCCAAATTTTGACATTGCTGCAGATGCTGCAGCAACCTTTAAGgtgggtattgtgtgaaagaacttgtgatcacagtttccttattttgtgccatgcactcttttgcaaagagtcaatgccatatggcgttgtgttgtttcag

upper sequence: GRMZM2G351417_T02 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA17G01180.1 (Glycine max), 5'ss of exon 4
GTATGTTTTAGAGTCCGAACATATGAAGAAGTTCTTCGACTATATACAGCTTCCAAATTTTGACATAGCTTCTGATGCTTCTGCTACCTTTAAGgcgagttgtttcactttttacctttcagagtacttttcatatagtgtggtctaatctggtcatattatgcttttgtaa--gcag
 |||||| | || ||    |||||||||||||| || ||||| || |||||||||||||||||||||||| | |||||  | || || |||||||    || |||   |   |||| | |      |  ||  | | |    ||  ||    || |||| ||| |||| |    ||||
ATATGTTCTGGACTCACCTCATATGAAGAAGTTTTTTGACTACATTCAGCTTCCAAATTTTGACATAGCTGCAGATGCCGCAGCAACTTTTAAGgtatatttttt--ttcggtaccatac------ccatttttttgggaaagttgaa---agttatat-atgtttttattgttgcag

upper sequence: GRMZM2G351417_T02 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA14G00940.1 (Glycine max), 5'ss of exon 5
GTATGTTTTAGAGTCCGAACATATGAAGAAGTTCTTCGACTATATACAGCTTCCAAATTTTGACATAGCTTCTGATGCTTCTGCTACCTTTAAGgcgagttgtttcactttttacctttcagagtactt-ttcatatagtgtggtctaat-ctggtcatat-tatgcttttgtaagcag---------------
| || |||| || || || || ||||||||||| || |||||||| ||||| ||||||||||| ||||| || ||||||  ||| || ||||| |   | |  ||    |  ||  | |   | |  |  |||| | |     | ||||| ||  | || |  ||| | ||      |                
GCATATTTTGGAATCAGAGCACATGAAGAAGTTTTTTGACTATATTCAGCTACCAAATTTTGAAATAGCATCAGATGCTGTTGCAACTTTTAAAgtatgctaattatgatgctatgtcttttaattttcattcacaaatctaagcctaattctcattatttacatgttcttcattttacttgcattgcgagaaa

upper sequence: GRMZM2G351417_T02 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA02G47710.1 (Glycine max), 5'ss of exon 5
GTATGTTTTAGAGTCCGAACATATGAAGAAGTTCTTCGACTATATACAGCTTCCAAATTTTGACATAGCTTCTGATGCTTCTGCTACCTTTAAGgcgagttgtttcactttttacctttcagagtacttttcatatagtgtggtctaat-ctggtcatat-tatgcttttgtaagcag------------------
| ||||||| || || || || ||||||||||| || |||||||| ||||| ||||| ||||| ||||| || ||||||  ||| || ||||| |   | | | | |   | |  |||| | | | |  |||| | |     | ||||| ||  | || |  ||| ||||      |                   
GCATGTTTTGGAATCAGAGCACATGAAGAAGTTTTTTGACTATATTCAGCTACCAAACTTTGAAATAGCATCAGATGCTGTTGCAACTTTTAAAgtatgct-tgtgatactatgtctttta-atttccattcacaaatctaagcctaattctcattatttacatgtttttcattttacttgcatcgcaagaaaggc

upper sequence: GRMZM2G351417_T02 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA15G12220.1 (Glycine max), 5'ss of exon 5
GTATGTTTTAGAGTCCGAACATATGAAGAAGTTCTTCGACTATATACAGCTTCCAAATTTTGACATAGCTTCTGATGCTTCTGCTACCTTTAAGgcgagttgtttcactttttacctttcagagtacttttcatatagtgtggtcta-atctggtcatattatgctt--ttgtaagcag----------------
 |||||  |  | ||    | |||||||||||| || |||||||| || ||||||||||||||||| ||| | |||||| | || |||||||||| | ||| | |        |    | |    | ||| |||||  ||||   |  |  |  |   |  |   |   | |||    |                
ATATGTGCTGAACTCACCTCGTATGAAGAAGTTTTTTGACTATATCCAACTTCCAAATTTTGACATTGCTGCGGATGCTGCAGCAACCTTTAAGgtgggttttctgtgaaagaagtcgtgatcacagtttccatattttgtgccatgcacttttttgcagcagagtcaatggtatatggtgttgtgttgtttcag

upper sequence: GRMZM2G351417_T02 (Zea mays), 5'ss of exon 4
lower sequence: AT4G17270.1 (Arabidopsis thaliana), 5'ss of exon 5
GTATGTTTTAGAGTCCGAACATATGAAGAAGTTCTTCGACTATATACAGCTTCCAAATTTTGACATAGCTTCTGATGCTTCTGCTACCTTTAAGgcgag------ttgtttcactttttacctttcagagtacttttcatat-agtgtgg-tctaatctg-gtcat----attatgcttttgtaagcag----------
 |||||||| || || || ||  |||||||||| ||  |||| ||||||||||| ||||| ||||| ||| |||||||| |||| || |||||||   |       ||   ||  |||    || |    || |    || | ||| |   ||||||    | |||    | |    ||  || |  |           
ATATGTTTTGGACTCGGAGCACGTGAAGAAGTTTTTTTACTACATACAGCTTCCCAATTTCGACATTGCTGCTGATGCTGCTGCAACTTTTAAGgtttgggaacactgcgacatatttggagttccctcataatcacgatctgagtatatctctaatacatgccatcataactccagttccgtgattattttcttgcag

upper sequence: GRMZM2G351417_T02 (Zea mays), 5'ss of exon 4
lower sequence: AT5G47540.1 (Arabidopsis thaliana), 5'ss of exon 5
GTATGTTTTAGAGTCCGAACATATGAAGAAGTTCTTCGACTATATACAGCTTCCAAATTTTGACATAGCTTCTGATGCTTCTGCTACCTTTAAGgc-----gagttgtttcac-tttttacctttcagagtacttttcatatagtgtggtctaatctggtcata-ttatgcttttgtaagcag---------
 |||||||| ||||| || ||| ||||||| ||||| || || ||||||||||||||||| ||||| ||| | |||||| ||||||| |||||||       |      || | |||||| |||  |   | |  |   |       |     ||    |||||  |       ||| |             
ATATGTTTTGGAGTCTGACCATGTGAAGAAATTCTTTGATTACATACAGCTTCCAAATTTCGACATTGCTGCCGATGCTGCTGCTACTTTTAAGgttccaaaacaaaactcgcatttttagcttggatctttccctgtctgggactagtaaacatgcaatcataactccaaacctgtcatttattttcacag

upper sequence: GRMZM2G351417_T02 (Zea mays), 5'ss of exon 4
lower sequence: Vv10s0405g00020.t01 (Vitis vinifera), 5'ss of exon 5
GTATGTTTTAGAGTCCGAACATATGAAGAAGTTCTTCGACTATATACAGCTTCCAAATTTTGACATAGCTTCTGATGCTTCTGCTACCTTTAAGgc-----gagttgtttcactttttac----ctttcagagtacttttcatatagtgtggtctaatctggtcatat-tatgcttttgtaagcag--------
||| ||  | || || |  || ||||||||||| || || ||||| || ||||||||||||||||| ||| | |||||| |||| || |||||||      ||  ||    | || |||     |||| |||  |||     | |       |||        || |   |  |    |||  ||         
GTACGTCCTGGAATCAGCGCACATGAAGAAGTTTTTTGATTATATTCAACTTCCAAATTTTGACATTGCTGCAGATGCTGCTGCAACTTTTAAGgtttgtggatctgaccaaattgttaaatgacttttagaacactgcctctctctctctctctctctcacacacacacacacacgggtacacacacacacac

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|60349070|gb|DN216043.1|DN216043
EST:     TACAGCTTCCAAATTTTGACATAGCTTCTGATGCTTCTGCTACCTTTAAG                         GAACTATTGACAAGACATAAAGCAACCGTTGCTGAATTTCTCTCCAACAAT
genomic: TACAGCTTCCAAATTTTGACATAGCTTCTGATGCTTCTGCTACCTTTAAGgcgagttgtt ... ttgtaagcagGAACTATTGACAAGACATAAAGCAACCGTTGCTGAATTTCTCTCCAACAAT
EST: gi|60401041|gb|DN233848.1|DN233848
EST:     TACAGCTTCCAAATTTTGACATAGCTTCTGATGCTTCTGCTACCTTTAAG                         GAACTATTGACAAGACATAAAGCAACCGTTGCTGAATTTCTCTCCAACAAT
genomic: TACAGCTTCCAAATTTTGACATAGCTTCTGATGCTTCTGCTACCTTTAAGgcgagttgtt ... ttgtaagcagGAACTATTGACAAGACATAAAGCAACCGTTGCTGAATTTCTCTCCAACAAT
EST: gi|60359357|gb|DN226330.1|DN226330
EST:     TACAGCTTCCAAATTTTGACATAGCTTCTGATGCTTCTGCTACCTTTAAG                         GAACTATTGACAAGACATAAAGCAACCGTTGCTGAATTTCTCTCCAACAAT
genomic: TACAGCTTCCAAATTTTGACATAGCTTCTGATGCTTCTGCTACCTTTAAGgcgagttgtt ... ttgtaagcagGAACTATTGACAAGACATAAAGCAACCGTTGCTGAATTTCTCTCCAACAAT