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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCTCTATTCTGTTGAGGGAATGCAGTTTGACCGTGGCTATATTTCTCCCTACTTTGTGACTGACAGTGAAAAAATGACAGTCGAGTATGAGAACTGCAAGgtttgatgctccccttcatcattgtactaaaaattctgtagtgctatctagtaatagcagtttttatgacttctgtacgcttacggtgattttaattctattaccag

Basic information

species Zea mays
transcript GRMZM2G015989_T01
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G015989_T01 (Zea mays), 5'ss of exon 6
lower sequence: LOC_Os02g01280.1 (Oryza sativa), 5'ss of exon 6
CCTCTATTCTGTTGAGGGAATGCAGTTTGACCGTGGCTATATTTCTCCCTACTTTGTGACTGACAGTGAAAAAATGACAGTCGAGTATGAGAACTGCAAGgtttgatgctccccttcat-cattgtactaaaaattctgtagtgctatctagtaatagcagtttttatgacttctgtacgctt-acggtgattttaattctattaccag-
 ||||||  ||||||||||||||| ||||| || ||||||||||||||||||||||| |||||||||||||||||| |||| ||||||||||| |||||||||||||||   |    || |  |||||| |||   |||| |   || | ||  |||    |||   ||   ||| | |  || | | | || || ||||||| |||   
TCTCTATGTTGTTGAGGGAATGCAATTTGATCGCGGCTATATTTCTCCCTACTTTGTAACTGACAGTGAAAAAATGTCAGTGGAGTATGAGAATTGCAAGgtttgatgcattctagaattcggtgtacttaaa---ctgt-gcattaaccag--atactcattt--gtgggctctatgcatttgatgctaatgttgattctatcacccag

upper sequence: GRMZM2G015989_T01 (Zea mays), 5'ss of exon 6
lower sequence: GLYMA15G40110.1 (Glycine max), 5'ss of exon 5
CCTCTATTCTGTTGAGGGAATGCAGTTTGACCGTGGCTATATTTCTCCCTACTTTGTGACTGACAGTGAAAAAATGACAGTCGAGTATGAGAACTGCAAGgtttgatgctccccttcatcattgtactaaaaattctgtagtgctatctagtaatagcagtttttatgacttctgtacgcttacggtgattttaattctattaccag
 || |||  ||| ||||| ||||| ||||||||||| ||||||||||| |||||||| ||||||||||| |||||| | || || ||||||||||| ||||| |||   |   ||      || | |    || |   || |  | | ||  |       | ||||       | ||   ||||   |  | | || |         
TCTATATGTTGTCGAGGGGATGCAATTTGACCGTGGTTATATTTCTCCATACTTTGTTACTGACAGTGAGAAAATGGCCGTTGAATATGAGAACTGTAAGgtgtgacatttgtct-----gttttccctgtaacttgttattattttttaacatccttcatatttaa-----ttataactttacatggtatgttatgcag-------

upper sequence: GRMZM2G015989_T01 (Zea mays), 5'ss of exon 6
lower sequence: GLYMA08G18760.2 (Glycine max), 5'ss of exon 5
CCTCTATTCTGTTGAGGGAATGCAGTTTGACCGTGGCTATATTTCTCCCTACTTTGTGACTGACAGTGAAAAAATGACAGTCGAGTATGAGAACTGCAAGgtttgatgctccccttcatcattgtactaaaaattctgtagtgctatctagtaatagcagtttttatgacttctgtacgcttacggtgattttaattctattaccag
 || |||  ||||||||| ||||| || |||||||| ||||||||||| ||||| || ||||||||||| |||||| | || |||||||||||||| |||||  ||   |   ||   |     | | ||  ||| | |  |   |||  ||  ||    |  ||||  ||| | || | | | | |   |  |             
TCTGTATGTTGTTGAGGGGATGCAATTCGACCGTGGTTATATTTCTCCATACTTCGTTACTGACAGTGAGAAAATGGCTGTTGAGTATGAGAACTGTAAGgtgagacatttgtctgt-tttccctgcgaattattattttttaacatcctgtg-tatt--tacttatagctt-tatatggt-atgtta--tgcag------------

upper sequence: GRMZM2G015989_T01 (Zea mays), 5'ss of exon 6
lower sequence: AT1G55490.2 (Arabidopsis thaliana), 5'ss of exon 6
CCTCTATTCTGTTGAGGGAATGCAGTTTGACCGTGGCTATATTTCTCCCTACTTTGTGACTGACAGTGAAAAAATGACAGTCGAGTATGAGAACTGCAAGgtttgatgctccccttcatcattgtactaaa--aattctgtagt---gctatctagtaatagcagtttttatgacttctgtacgcttacggtgattttaattctattaccag-----
||||||    || || |||||||| ||||||||||| ||||| ||||| ||||||||||| ||||| || |||||| | |||||||  || || ||||||||  |||| |  | |  |||   |||  | |  |||| ||| |     |||| |||  |    || | ||   |  |  |||     ||| |  ||    || |  ||  |      
CCTCTACGTCGTAGAAGGAATGCAATTTGACCGTGGTTATATCTCTCCTTACTTTGTGACAGACAGCGAGAAAATGTCCGTCGAGTTCGACAATTGCAAGgta-gatg-tttcttgaatctgagtagaagatgaattttgttggcagactatttagccactaaagatatttatatatgagtataacaacgatctttaatgttttggtatgattgcag

upper sequence: GRMZM2G015989_T01 (Zea mays), 5'ss of exon 6
lower sequence: AT5G56500.1 (Arabidopsis thaliana), 5'ss of exon 6
CCTCTATTCTGTTGAGGGAATGCAGTTTGACCGTGGCTATATTTCTCCCTACTTTGTGACTGACAGTGAAAAAATGACAGTCGAGTATGAGAACTGCAAGgtttgatgctccccttcatcattgtactaaaaattctgtagtgctatctagtaatagcagt-ttttatgacttctgtacgcttacggtgattttaattctattaccag
||| ||   |||||| |||||||| ||||| ||||| ||||| ||||| |||||||| || |||||||| ||||||   |  || ||||||||||||||||| | ||        |  |  || |||    || |||  |  |||    |  ||  ||||| |||| |||||      | |||   |   || ||             
CCTTTACGTTGTTGAAGGAATGCAATTTGATCGTGGTTATATCTCTCCTTACTTTGTCACCGACAGTGAGAAAATGTGTGCAGAATATGAGAACTGCAAGgtattat--------tattgtttatacagttaaatcttaatagctgataaaaaaccgcagtattttttgactatatgtctcttcttgcttttgtag------------

upper sequence: GRMZM2G015989_T01 (Zea mays), 5'ss of exon 6
lower sequence: AT3G13470.1 (Arabidopsis thaliana), 5'ss of exon 6
CCTCTATTCTGTTGAGGGAATGCAGTTTGACCGTGGCTATATTTCTCCCTACTTTGTGACTGACAGTGAAAAAATGACAGTCGAGTATGAGAACTGCAAGgtttgatgctccccttcatcattgtactaaaa--attctgtagtgctatctagtaatagcagtttttatgacttctgtacgcttacggtgattttaattctattaccag
||| |||  ||| || |||||||| ||||||||||| ||||| || || ||||||||||| |||||||| |||||| | || |||||||| || |||||||  | ||  | |  |         ||| ||||  ||  |||  ||| |  |||    |  ||||| ||      |||| |                             
CCTTTATGTTGTGGAAGGAATGCAATTTGACCGTGGTTATATCTCCCCATACTTTGTGACAGACAGTGAGAAAATGTCTGTTGAGTATGACAATTGCAAGg--taatttttctttattctgagctaccaaaatgatattgtgatgc-aaatagcctaacaagtttcta------ctgtgcag---------------------------

upper sequence: GRMZM2G015989_T01 (Zea mays), 5'ss of exon 6
lower sequence: Vv09s0002g03930.t01 (Vitis vinifera), 5'ss of exon 5
CCTCTATTCTGTTGAGGGAATGCAGTTTGACCGTGGCTATATTTCTCCCTACTTTGTGACTGACAGTGAAAAAATGACAGTCGAGTATGAGAACTGCAAGgtttgatgct----ccccttcatcattgtactaaaaattctgtagtgctatctagt----aatagcagttttta-tgacttctgtacgcttacggtgattttaattctattaccag-----------------------
| | |||  ||| || |||||||||||||| ||||| ||||| ||||| ||||| || || |||||||| |||||| | || || ||||| || ||||||||  || ||     |  |  |||  || | | | | | |||  |  |  || |       | |   | || ||| |||||   ||    |  |  |   ||| ||| ||||                            
CTTGTATGTTGTGGAAGGAATGCAGTTTGATCGTGGTTATATCTCTCCTTACTTCGTCACAGACAGTGAGAAAATGGCTGTTGAATATGAAAATTGCAAGgtaagaggccaagacttcagcattttttttccatatagtctccaaggaaatatgaccctaagtgttacttgttactgactctggttttatctcccttcgttttattatattgatttttttgggacatctgtttatgcag

upper sequence: GRMZM2G015989_T01 (Zea mays), 5'ss of exon 6
lower sequence: Vv06s0004g00240.t01 (Vitis vinifera), 5'ss of exon 6
CCTCTATTCTGTTGAGGGAATGCAGTTTGACCGTGGCTATATTTCTCCCTACTTTGTGACTGACAGTGAAAAAATGACAGTCGAGTATGAGAACTGCAAGgtttgatgctccccttcatcattgtactaaaaattctgtagtgctatctagtaatagcagtttttatgacttctgtacgcttacggtgattttaattctattaccag
||| |||  |||||| |||||||| ||||||||||| ||||| || || |||||||| || || ||||| |||||| |||| || |  |||||||||||||||||    | | ||| || ||| ||  | |  |  | | || || |||   | | |   | ||| || |||    |  || ||    |||||  |  | |      
CCTGTATGTTGTTGAAGGAATGCAATTTGACCGTGGTTATATCTCACCTTACTTTGTCACCGATAGTGAGAAAATGGCAGTTGAATTCGAGAACTGCAAGgtttg-catttctctt-ataatt-taggagagctaatatggtact-tctgcaagttg-gttctttctggctttctaa--ctgaca--aattttgttcatgtag----

upper sequence: GRMZM2G015989_T01 (Zea mays), 5'ss of exon 6
lower sequence: PP1S14_298V6.1 (Physcomitrella patens), 5'ss of exon 5
CCTCTATTCTGTTGAGGGAATGCAGTTTGACCGTGGCTATATTTCTCCCTACTTTGTGACTGACAGTGAAAAAATGACAGTCGAGTATGAGAACTGCAAGgtttgatgctccccttcatcattgtactaaaaattctgtagtgctatctagtaatagcagtttttatgacttctgtacgcttacggtgattttaattctattaccag--
||| ||    || ||||| |||||||||||| | ||||| ||||| ||||| ||||||||||||   || || ||| | || |||||||| ||||||| |||   |||||||  || ||  || ||  ||    | || |    |||||  |  |  ||    ||   |      |  || | |    |||  ||     | |||    
CCTGTACGTGGTCGAGGGCATGCAGTTTGACAGAGGCTACATTTCCCCCTATTTTGTGACTGACCCAGAGAAGATGTCTGTGGAGTATGATAACTGCAGGgt---atgctcctatt-at--ttttaagaatgcctttggatgtttatctgcttgtgacatcgcttgaaagcggaatctgcgtgc---aattacaaactgctgaccgaca

upper sequence: GRMZM2G015989_T01 (Zea mays), 5'ss of exon 6
lower sequence: PP1S276_75V6.1 (Physcomitrella patens), 5'ss of exon 5
CCTCTATTCTGTTGAGGGAATGCAGTTTGACCGTGGCTATATTTCTCCCTACTTTGTGACTGACAGTGAAAAAATGACAGTCGAGTATGAGAACTGCAAGgtttgatgctccccttcatcattgtactaaaaattctgtag-tgctatctagtaatagcagtttttatgacttctgtacgcttacggtgattttaattctattaccag
| | |||   |||||||| ||||| || ||| | || || |||||||||||||||||||||||    || || |||   || ||||| || ||||||| ||| || |  |  | || | | |     |     ||  | |  |  ||| || |||  |   |  ||   || ||| | | | ||  |     | ||    | |     
CTTGTATGTGGTTGAGGGGATGCAATTCGACAGAGGATACATTTCTCCCTACTTTGTGACTGATCCCGAGAAGATGGATGTTGAGTACGACAACTGCAGGgtatgtttgtatctttaaccctctagttttttttttcgaaaatagtatttaataac-gtgatactt-ccacctcttttcacgtagagctgcct-aagagaact-----

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|32930585|gb|CF035397.1|CF035397
EST:     ACTTTGTGACTGACAGTGAAAAAATGACAGTCGAGTATGAGAACTGCAAG                         CTTCTCCTTGTGGACAAGAAAATTAACAATGCCAGAGATCTTATCACTATC
genomic: ACTTTGTGACTGACAGTGAAAAAATGACAGTCGAGTATGAGAACTGCAAGgtttgatgct ... ctattaccagCTTCTCCTTGTGGACAAGAAAATTAACAATGCCAGAGATCTTATCACTATC
EST: gi|31355200|gb|CD439557.1|CD439557
EST:     ACTTTGTGACTGACAGTGAAAAAATGACAGTCGAGTATGAGAACTGCCAG                         CTTCTCCTTGTGGA
genomic: ACTTTGTGACTGACAGTGAAAAAATGACAGTCGAGTATGAGAACTGCAAGgtttgatgct ... ctattaccagCTTCTCCTTGTGGA
EST: gi|211451955|gb|FL157391.1|FL157391
EST:     ACTTTGTGACTGACAGTGAAAAAATGACAGTCGAGTATGAGAACTGCAAG                         CTTCTCCTTGTGGACAAGAAAATTAACAATGCCAGAGATCTTATCACTATC
genomic: ACTTTGTGACTGACAGTGAAAAAATGACAGTCGAGTATGAGAACTGCAAGgtttgatgct ... ctattaccagCTTCTCCTTGTGGACAAGAAAATTAACAATGCCAGAGATCTTATCACTATC
EST: gi|211451956|gb|FL157392.1|FL157392
EST:     ACTTTGTGACTGACAGTGAAAAAATGACAGTCGAGTATGAGAACTGCAAG                         CTTCTCCTTGTGGAC
genomic: ACTTTGTGACTGACAGTGAAAAAATGACAGTCGAGTATGAGAACTGCAAGgtttgatgct ... ctattaccagCTTCTCCTTGTGGAC
EST: gi|211451954|gb|FL157390.1|FL157390
EST:     ACTTTGTGACTGACAGTGAAAAAATGACAGTCGAGTATGAGAACTGCAAG                         CTTCTCCTTGTGGACAAGAAAATTAACAATGCCAGAGATCTTATCACTATC
genomic: ACTTTGTGACTGACAGTGAAAAAATGACAGTCGAGTATGAGAACTGCAAGgtttgatgct ... ctattaccagCTTCTCCTTGTGGACAAGAAAATTAACAATGCCAGAGATCTTATCACTATC
EST: gi|78081967|gb|DV510379.1|DV510379
EST:     ACTTTGTGACTGACAGTGAAAAAATGACAGTCGAGTATGAGAACTGCAAG                         CTTCTCCTTGTGGACAAGAAAATTAACAATGCCAGAGATCTTATCACTATC
genomic: ACTTTGTGACTGACAGTGAAAAAATGACAGTCGAGTATGAGAACTGCAAGgtttgatgct ... ctattaccagCTTCTCCTTGTGGACAAGAAAATTAACAATGCCAGAGATCTTATCACTATC