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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCTCCTTAAGCTCATCAATGCCAAGAACACCATGGAAATTGGTGTCTACACTGGGTATTCACTTCTTGCCACCGCTCTCGCTCTTCCTGAAGATGGAAAGgtatgaaaagcttcttcttggcaaaaccatttctttatgcaattatactcaaatgggtatttatttattaattacatccaattttgggaaagagtgtccaattatggcatgatgtgttaaacaacaaaaattgtctgaaatttaagttattgtttgtacctggtgcag

Basic information

species Glycine max
transcript GLYMA07G33780.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA07G33780.1 (Glycine max), 5'ss of exon 3
lower sequence: AT4G34050.1 (Arabidopsis thaliana), 5'ss of exon 2
GCTCCTTAAGCTCATCAATGCCAAGAACACCATGGAAATTGGTGTCTACACTGGGTATTCACTTCTTGCCACCGCTCTCGCTCTTCCTGAAGATGGAAAGgtatgaaaagcttcttcttggcaaaaccatttctttatgcaattatactcaaatgggtatttatttattaattacatccaattttgggaaagagtgtccaattatggcatgatgtgttaaacaacaaaaattgtctgaaatttaagttattgtttgtacctggtgcag
|||  | |||||| | || ||||||||||| ||||| || || || |||||||| || || ||||| ||||||||||| ||||| |||||||| || || |||    || ||  |  |   |    |  ||| ||  ||   ||   |  |  |||| ||| |    || ||    |  |   |  |                                                                                 
GCTTATCAAGCTCGTTAACGCCAAGAACACAATGGAGATCGGAGTTTACACTGGCTACTCTCTTCTCGCCACCGCTCTTGCTCTCCCTGAAGACGGCAAAgtaaatcaatctcttcatc--ctcctctgttttttggtgggttttgtcgaacttgggaattgaaagtttcatcctttttatcatcag---------------------------------------------------------------------------------

upper sequence: GLYMA07G33780.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv03s0063g00140.t01 (Vitis vinifera), 5'ss of exon 3
GCTCCTTAAGCTCATCAATGCCAAGAACACCATGGAAATTGGTGTCTACACTGGGTATTCACTTCTTGCCACCGCTCTCGCTCTTCCTGAAGATGGAAAGgtatgaaaagcttcttcttggcaaaaccatttctttatgcaattatactcaaatgggtatttatttattaattacatccaattttgggaaagagtgtccaattatggcatgatgtgttaaacaacaaaaattgtctgaaatttaagttattgtttgtacctggtgcag
||| || ||||||||||||||||||||||||||||| || || ||||||||||| || || ||||| ||||| || || ||||| || || || ||||||||  | |||   |  || | |   |||    |  | || |||  |     |||    | || ||   | ||  | ||    | |||         |                                                                        
GCTTCTCAAGCTCATCAATGCCAAGAACACCATGGAGATAGGCGTCTACACTGGCTACTCTCTTCTGGCCACAGCCCTTGCTCTCCCCGATGACGGAAAGgtcgggaaa---tggtcatagatcaacacagtaatcatccaagcacgtataaaaaaatgtt-atggctgaaaaaaattggttcttgattgttgcag------------------------------------------------------------------------
















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|6665876|gb|AW277326.1|AW277326
EST:     CTGGGTATTCACTTCTTGCCACCGCTCTCGCTCTTCCTGAAGATGGAAAG                         ATCTTGGCCATGGACATTAACAGGGAGAATTATGAATTGGGTTTGCCTGTA
genomic: CTGGGTATTCACTTCTTGCCACCGCTCTCGCTCTTCCTGAAGATGGAAAGgtatgaaaag ... cctggtgcagATCTTGGCCATGGACATTAACAGGGAGAATTATGAATTGGGTTTGCCTGTA
EST: gi|16106075|gb|BI893815.1|BI893815
EST:     CTGGGTATTCACTTCTTGCCACCGCTCTCGCTCTTCCTGAAGATGGAAAG                         ATCTTGGCCATGGACATTAACAGGGAGAATTATGAATTGGGTTTGCCTGTA
genomic: CTGGGTATTCACTTCTTGCCACCGCTCTCGCTCTTCCTGAAGATGGAAAGgtatgaaaag ... cctggtgcagATCTTGGCCATGGACATTAACAGGGAGAATTATGAATTGGGTTTGCCTGTA
EST: gi|13311958|gb|BG405609.1|BG405609
EST:     CTGGGTATTCACTTCTTGCCACCGTTCTCGCTCTTCCTGAAGATGGAAAG                         ATCTTGGCCATGGACATTAACAGGGAGAATTATGAATTGGGTTAGCCTGTA
genomic: CTGGGTATTCACTTCTTGCCACCGCTCTCGCTCTTCCTGAAGATGGAAAGgtatgaaaag ... cctggtgcagATCTTGGCCATGGACATTAACAGGGAGAATTATGAATTGGGTTTGCCTGTA
EST: gi|8403758|gb|BE059325.1|BE059325
EST:     CTGGGTATTCACTTCTTGCCACCGCTCTCGCTCTTCCTGAAGATGGAAAG                         ATCTTGGCCATGGACATTAACAGGGAGAATTATGAATTGGGTTTGCCTGTA
genomic: CTGGGTATTCACTTCTTGCCACCGCTCTCGCTCTTCCTGAAGATGGAAAGgtatgaaaag ... cctggtgcagATCTTGGCCATGGACATTAACAGGGAGAATTATGAATTGGGTTTGCCTGTA
EST: gi|4395716|gb|AI494713.1|AI494713
EST:     CTGGGTATTCACTTCTTGCCACCGCTCTCGCTCTTCCTGAAGATGGAAAG                         ATCTTGGCCATGGACATTAACAGGGAGAATTATGAATTGGGTTTGCCTGTA
genomic: CTGGGTATTCACTTCTTGCCACCGCTCTCGCTCTTCCTGAAGATGGAAAGgtatgaaaag ... cctggtgcagATCTTGGCCATGGACATTAACAGGGAGAATTATGAATTGGGTTTGCCTGTA
EST: gi|58022356|gb|CX709097.1|CX709097
EST:     CTTGCCACCGCTCTCGCTCTTCNTGAAGATGAAAAG                         ATCTTGGCCATGGACATT-ACAGGGGAGAATTATGAATTGGGTTTGCCTGT
genomic: CTTGCCACCGCTCTCGCTCTTCCTGAAGATGGAAAGgtatgaaaag ... cctggtgcagATCTTGGCCATGGACATTAACA-GGGAGAATTATGAATTGGGTTTGCCTGT
EST: gi|4301016|gb|AI443130.1|AI443130
EST:     CTGGGTATTCACTTCTTGCCACCGCTCTCGCTCTTCCTGAAGATGGAAAG                         ATCTTGGCCATGGACATTAACAGGGAGAATTATGAATTGGGTTTGCCTGTA
genomic: CTGGGTATTCACTTCTTGCCACCGCTCTCGCTCTTCCTGAAGATGGAAAGgtatgaaaag ... cctggtgcagATCTTGGCCATGGACATTAACAGGGAGAATTATGAATTGGGTTTGCCTGTA
EST: gi|26048143|gb|CA784719.1|CA784719
EST:     CTGGGTATTCACTTCTTGCCACCGCTCTCGCTCTTCCTGAAGATGGAAAG                         ATCTTGGCCATGGACATTAACAGGGAGAATTATGAATTGGGTTTGCCTGTA
genomic: CTGGGTATTCACTTCTTGCCACCGCTCTCGCTCTTCCTGAAGATGGAAAGgtatgaaaag ... cctggtgcagATCTTGGCCATGGACATTAACAGGGAGAATTATGAATTGGGTTTGCCTGTA
EST: gi|7639897|gb|AW734209.1|AW734209
EST:     CTGGGTATTCACTTCTTGCCACCGCTCTCGCTCTTCCTGAAGATGGAAAG                         ATCTTGGCCATGGACATTAACAGGGAGAATTATGAATTGGGTTTGCCTGTA
genomic: CTGGGTATTCACTTCTTGCCACCGCTCTCGCTCTTCCTGAAGATGGAAAGgtatgaaaag ... cctggtgcagATCTTGGCCATGGACATTAACAGGGAGAATTATGAATTGGGTTTGCCTGTA
EST: gi|7042340|gb|AW472234.1|AW472234
EST:     CTGGGTATTCACTTCTTGCCACCGCTCTCGCTCTTCCTGAAGATGGAAAG                         ATCTTGGCCATGGACATTAACAGGGAGAATTATGAATTGGGTTTGCCTGTA
genomic: CTGGGTATTCACTTCTTGCCACCGCTCTCGCTCTTCCTGAAGATGGAAAGgtatgaaaag ... cctggtgcagATCTTGGCCATGGACATTAACAGGGAGAATTATGAATTGGGTTTGCCTGTA
EST: gi|15661667|gb|BI699038.1|BI699038
EST:     CTGGGTATTCACTTCTTGCCACCGCTCTCGCTCTTCCTGAAGATGGAAAG                         ATCTTGGCCATGGACATTAACAGGGAGAATTATGAATTGGGTTTGCCTGTA
genomic: CTGGGTATTCACTTCTTGCCACCGCTCTCGCTCTTCCTGAAGATGGAAAGgtatgaaaag ... cctggtgcagATCTTGGCCATGGACATTAACAGGGAGAATTATGAATTGGGTTTGCCTGTA
EST: gi|6200792|gb|AW152892.1|AW152892
EST:     CACCGCTCTCGCTCTTCCTGAAGATGGAAAG                         ATCTTGGCCATGGACATTAACAGGGAGAATTATGAATTGGGTTTGCCTGTA
genomic: CACCGCTCTCGCTCTTCCTGAAGATGGAAAGgtatgaaaag ... cctggtgcagATCTTGGCCATGGACATTAACAGGGAGAATTATGAATTGGGTTTGCCTGTA
EST: gi|13312671|gb|BG406322.1|BG406322
EST:     CTGGGTATTCACTTCTTGCCACCGCTCTCGCTCTTCCTGAAGATGGAAAG                         ATCTTGGCCATGGACATTAACAGGGAGAATTATGAATTGGGTTTGCCTGTA
genomic: CTGGGTATTCACTTCTTGCCACCGCTCTCGCTCTTCCTGAAGATGGAAAGgtatgaaaag ... cctggtgcagATCTTGGCCATGGACATTAACAGGGAGAATTATGAATTGGGTTTGCCTGTA
EST: gi|151395162|gb|EV265033.1|EV265033
EST:     CTGGGTATTCACTTCTTGCCACCGCTCTCGCTCTTCCTGAAGATGGAAAG                         ATCTTGGCCATGGACATTAACAGGGAGAATTATGAATTGGGTTTGCCTGTA
genomic: CTGGGTATTCACTTCTTGCCACCGCTCTCGCTCTTCCTGAAGATGGAAAGgtatgaaaag ... cctggtgcagATCTTGGCCATGGACATTAACAGGGAGAATTATGAATTGGGTTTGCCTGTA
EST: gi|151401262|gb|EV271076.1|EV271076
EST:     CTGGGTATTCACTTCTTGCCACCGCTCTCGCTCTTCCTGAAGATGGAAAG                         ATCTTGGCCATGGACATTAACGGGGAGAATTATGAATTGGGTCTGCCTGTA
genomic: CTGGGTATTCACTTCTTGCCACCGCTCTCGCTCTTCCTGAAGATGGAAAGgtatgaaaag ... cctggtgcagATCTTGGCCATGGACATTAACAGGGAGAATTATGAATTGGGTTTGCCTGTA
EST: gi|20498741|gb|BQ273671.1|BQ273671
EST:     CTTCTTGCCACCGCTCTCGCTCTTCCTGAAGATGGAAAG                         ATCTTGGCCATGGACATTAACAGGGAGAATTATGAATTGGGTTTGCCTGTA
genomic: CTTCTTGCCACCGCTCTCGCTCTTCCTGAAGATGGAAAGgtatgaaaag ... cctggtgcagATCTTGGCCATGGACATTAACAGGGAGAATTATGAATTGGGTTTGCCTGTA
EST: gi|15000825|gb|BI321639.1|BI321639
EST:     CTGGGTATTCACTTCTTGCCACCGCTCTCGCTCTTCCTGAAGATGGAAAG                         ATCTTGGCCATGGACATTAACAGGGAGAATTATGAATTGGGTTTGCCTGTA
genomic: CTGGGTATTCACTTCTTGCCACCGCTCTCGCTCTTCCTGAAGATGGAAAGgtatgaaaag ... cctggtgcagATCTTGGCCATGGACATTAACAGGGAGAATTATGAATTGGGTTTGCCTGTA
EST: gi|151396345|gb|EV266222.1|EV266222
EST:     GCCACCGCTCTCGCTCTTCCTGAAGATGGAAAG                         ATCTTGGCCATGGACATTAACAGGGAGAATTATGAATTGGGTTTGCCTGTA
genomic: GCCACCGCTCTCGCTCTTCCTGAAGATGGAAAGgtatgaaaag ... cctggtgcagATCTTGGCCATGGACATTAACAGGGAGAATTATGAATTGGGTTTGCCTGTA
EST: gi|41145686|gb|CK605897.1|CK605897
EST:     CTGGGTATTCACTTCTTGCCACCGCTCTCGCTCTTCCTGAAGATGGAAAG                         ATCTTGGCCGTGGACATTAACAGGGAGAATTATGAATTGGGTTTGCCTGTA
genomic: CTGGGTATTCACTTCTTGCCACCGCTCTCGCTCTTCCTGAAGATGGAAAGgtatgaaaag ... cctggtgcagATCTTGGCCATGGACATTAACAGGGAGAATTATGAATTGGGTTTGCCTGTA

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCTCCTTAAGCTCATCAATGCCAAGAACACCATGGAAATTGGTGTCTACACTGGGTATTCACTTCTTGCCACCGCTCTCGCTCTTCCTGAAGATGGAAAGgtatgaaaagcttcttcttggcaaaaccatttctttatgcaattatactcaaatgggtatttatttattaattacatccaattttgggaaagagtgtccaattatggcatgatgtgttaaacaacaaaaattgtctgaaatttaagttattgtttgtacctggtgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GATGGA