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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGAAGAATTTGTTATGACTAAAGATGAATTCTCTGGAGCTGATATAAAGGCAATATGTACTGAAGCCGGTTTACTTGCTCTACGAGAACGCCGAATGAAGgtaagaaatctctcttgtttatatgatataataatagtactccattgttgtacggaagttgctagttttttacaactcatattgataaagccaaaatata...

Basic information

species Glycine max
transcript GLYMA10G04920.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G04920.1 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os07g49150.1 (Oryza sativa), 5'ss of exon 4
GGAAGAATTTGTTATGACTAAAGATGAATTCTCTGGAGCTGATATAAAGGCAATATGTACTGAAGCCGGTTTACTTGCTCTACGAGAACGCCGAATGAAGgtaagaa--atctctcttgtttatatgatataataatagtactccattgttgtacggaagttgctagttttttacaactcatattgataaagccaaaatata--
|||||| ||||| ||||| || ||||| || || || |||||||| || ||||||||||||||||| ||  | |||||| |  |||||||||||||||||||| ||   | |  | |||| | ||   |  ||||||   ||    |    |  |  || ||      ||||  | ||| |  |  |||   |||||  ||   
GGAAGAGTTTGTCATGACCAAGGATGAGTTTTCCGGTGCTGATATCAAAGCAATATGTACTGAAGCTGGACTTCTTGCTTTGAGAGAACGCCGAATGAAGgtatgagtgaacctttttgtctcta-attgaaataatcaaaccttttatgagagcccaatttagaccgttttgtctactgacctatata---ccaaacaatgtc

upper sequence: GLYMA10G04920.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G056569_T01 (Zea mays), 5'ss of exon 4
GGAAGAATTTGTTATGACTAAAGATGAATTCTCTGGAGCTGATATAAAGGCAATATGTACTGAAGCCGGTTTACTTGCTCTACGAGAACGCCGAATGAAGgtaaga--aatctctcttgtttatatgatataataatagtactccattgttgtacggaagttgctagttttttacaactcatattgataaagccaaaatata
|||||| ||||||||||| |||||||| ||||| || |||||||| ||||| || || || || || || || || ||  || |||||||  ||||||| || ||    | ||    |   || || |  |  || ||    |   | | || |  |||||       |   |  | ||  ||||    |  | || |   |
GGAAGAGTTTGTTATGACCAAAGATGAGTTCTCGGGCGCTGATATTAAGGCCATCTGCACGGAGGCTGGATTGCTCGCCTTAAGAGAACGTAGAATGAAAgtgagcctgaacttgtatccctacatcaattcgta-taaacttgtctgggtgaatagaagtattcgaataactcgaccttttatttgctat-cgaataggga

upper sequence: GLYMA10G04920.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G095593_T01 (Zea mays), 5'ss of exon 4
GGAAGAATTTGTTATGACTAAAGATGAATTCTCTGGAGCTGATATAAAGGCAATATGTACTGAAGCCGGTTTACTTGCTCTACGAGAACGCCGAATGAAGgtaag---aaatctctcttgtttatatgatataataatagtactccattgttgtacggaagttgctagttttttacaactcatattgataaagccaaaatata
|||||| ||||||||||| ||||| || || || || |||||||| |||||||| || || || || || || |||||  || |||||||| |||||||||||      ||  | | |  |||     | |||     || | |   | | || |   || |    |  |   | ||||| || ||| ||  |   |   || 
GGAAGAGTTTGTTATGACCAAAGACGAGTTTTCGGGTGCTGATATTAAGGCAATCTGCACAGAGGCTGGATTGCTTGCCTTAAGAGAACGCAGAATGAAGgtagacgtgaacttttatcttttgctaaaaatagattcagaattttctgggtgaatataactgttcaaataact-caact-attttgctattggataggaat-

upper sequence: GLYMA10G04920.1 (Glycine max), 5'ss of exon 5
lower sequence: AT4G29040.1 (Arabidopsis thaliana), 5'ss of exon 5
GGAAGAATTTGTTATGACTAAAGATGAATTCTCTGGAGCTGATATAAAGGCAATATGTACTGAAGCCGGTTTACTTGCTCTACGAGAACGCCGAATGAAGgtaagaaatctctcttgtttatatgatataataatagtactccattgttgtacggaagttgc-tagttttttacaactcatattgataaagccaaaatata---------
 ||||| ||||| ||||| ||||| || ||||| ||||||||||||||||| ||||| ||||| || ||| |||| |||||  | || || || |||||||||   | |||      ||||  | |   |   |||  |   ||       ||   | |||   | ||  |  | ||| |   | ||      ||| |  |         
CGAAGAGTTTGTGATGACGAAAGACGAGTTCTCAGGAGCTGATATAAAGGCTATATGCACTGAGGCTGGTCTACTAGCTCTCAGGGAGCGTCGTATGAAGgtagagactcttaaccatttagttcaagcac--atacaaacacacacacacacaccacttgggcaattactagccactgacgctaatgtgtttaaattggatttgttcag

upper sequence: GLYMA10G04920.1 (Glycine max), 5'ss of exon 5
lower sequence: AT2G20140.1 (Arabidopsis thaliana), 5'ss of exon 5
GGAAGAATTTGTTATGACTAAAGATGAATTCTCTGGAGCTGATATAAAGGCAATATGTACTGAAGCCGGTTTACTTGCTCTACGAGAACGCCGAATGAAGgtaagaaatctctcttgtttatatgatataataatagtactccattgttgtacggaagttgctagttttttac---aactcatattgataaagccaaaatata
 ||||| ||||| ||||| ||||| || ||||| ||||||||||||||||||||||| || ||||| ||| | ||||||||  |||| || || ||||| ||||| | |||||    | |      |  | | || | || | ||  ||| |      |   |     |||       ||  ||||| |  ||          
AGAAGAGTTTGTAATGACAAAAGACGAGTTCTCAGGAGCTGATATAAAGGCAATATGCACAGAAGCTGGTCTGCTTGCTCTTAGAGAGCGTCGGATGAAAgtaaggattctctggcttctcaccacttgattcatcgaacgcaatctttgaataattttactttaacctttgtttggtcttctattggtttag----------

upper sequence: GLYMA10G04920.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv07s0005g05160.t01 (Vitis vinifera), 5'ss of exon 5
GGAAGAATTTGTTATGACTAAAGATGAATTCTCTGGAGCTGATATAAAGGCAATATGTACTGAAGCCGGTTTACTTGCTCTACGAGAACGCCGAATGAAGgtaagaaat-ctctcttgttta-tatgatat--aataatagtactccattgttgtacggaagttgctagttttttacaactcatattgataaagccaaaatata
||||||||||||||||||||| ||||| || |||||||||||||||||||||||||| |||||||| ||||| |||||| || ||||||| || |||||||| ||   | ||||  | |||  | | |||   |  ||    | | ||||||   | |   ||   |   |    ||  |    ||  || |            
GGAAGAATTTGTTATGACTAAGGATGAGTTTTCTGGAGCTGATATAAAGGCAATATGCACTGAAGCTGGTTTGCTTGCTTTAAGAGAACGGCGTATGAAGgtgaggcttgctcttctatttcctcttatagcaaggaaggaaatttcattgtctaatgattgtgtatgtgtgagcactgcatgcatgtatgatttttttc----

upper sequence: GLYMA10G04920.1 (Glycine max), 5'ss of exon 5
lower sequence: EFJ32659 (Selaginella moellendorffii), 5'ss of exon 5
GGAAGAATTTGTTATGACTAAAGATGAATTCTCTGGAGCTGATATAAAGGCAATATGTACTGAAGCCGGTTTACTTGCTCTACGAGAACGCCGAATGAAGgtaagaaatctctcttgtttatatgatataataatagt-actccattgttgtacggaagttgctagttttttacaactcatattgataaagccaaaatata
 ||||| ||||| ||||| || |||||||||||||||||||| || |||||||| || |||||||| ||  | || || ||| ||||||| || |||||||||     ||||  |  |||  |  |  |  |  ||   | |   || || | | |                                             
TGAAGAGTTTGTGATGACGAAGGATGAATTCTCTGGAGCTGACATCAAGGCAATGTGCACTGAAGCTGGGCTTCTGGCACTAAGAGAACGGCGGATGAAGgtagtt--tctcaatgcttttcacaactttcttgtaacgattttcttcttctccag---------------------------------------------

upper sequence: GLYMA10G04920.1 (Glycine max), 5'ss of exon 5
lower sequence: EFJ20767 (Selaginella moellendorffii), 5'ss of exon 5
GGAAGAATTTGTTATGACTAAAGATGAATTCTCTGGAGCTGATATAAAGGCAATATGTACTGAAGCCGGTTTACTTGCTCTACGAGAACGCCGAATGAAGgtaagaaatctctcttgtttatatgatataataatagt-actccattgttgtacggaagttgctagttttttacaactcatattgataaagccaaaatata
 ||||| ||||| ||||| || || ||||| ||||||||||| || |||||||| || |||||||| ||  | || || ||| ||||||| || |||||||||     ||||  |  |||  |  |  |  |  ||   | |   || || | | |                                             
TGAAGAGTTTGTGATGACGAAGGACGAATTTTCTGGAGCTGACATCAAGGCAATGTGCACTGAAGCTGGGCTTCTGGCACTAAGAGAACGGCGGATGAAGgtagtt--tctcgatgcttttcacaactttcttgtaacgattttcttcttctccag---------------------------------------------

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|208191748|gb|GD991500.1|GD991500
EST:     CAATATGTACTGAAGCCGGTTTACTTGCTCTACGAGAACGCCGAATGAAG                         GTGACTCATGCCGA
genomic: CAATATGTACTGAAGCCGGTTTACTTGCTCTACGAGAACGCCGAATGAAGgtaagaaatc ... ttttgttcagGTGACTCATGCCGA
EST: gi|6228089|gb|AW156688.1|AW156688
EST:     CTACGAGAACGCCGAATGAAG                         GTGACTCATGCCGACTTTAAGAAGGCCAAGGATAAAGTGATGTTTAAGAAG
genomic: CTACGAGAACGCCGAATGAAGgtaagaaatc ... ttttgttcagGTGACTCATGCCGACTTTAAGAAGGCCAAGGATAAAGTGATGTTTAAGAAG
EST: gi|7233057|gb|AW568408.1|AW568408
EST:     CAATATGTACTGAAGCCGGTTTACTTGCTCTACGAGAACGCCGAATGAAG                         GTGACTCATGCCGACTTTAAGAAGGCCAAGGATAAAGTGATGTTTAAGAAG
genomic: CAATATGTACTGAAGCCGGTTTACTTGCTCTACGAGAACGCCGAATGAAGgtaagaaatc ... ttttgttcagGTGACTCATGCCGACTTTAAGAAGGCCAAGGATAAAGTGATGTTTAAGAAG
EST: gi|6747653|gb|AW318166.1|AW318166
EST:     CAATATGTACTGAAGCCGGTTTACTTGCTCTACGAGAACGCCGAATGAAG                         GTGACTCATGCCGACTTTAAGAAGGCCAAGGATAAAGTGATGTTTAAGAAG
genomic: CAATATGTACTGAAGCCGGTTTACTTGCTCTACGAGAACGCCGAATGAAGgtaagaaatc ... ttttgttcagGTGACTCATGCCGACTTTAAGAAGGCCAAGGATAAAGTGATGTTTAAGAAG
EST: gi|208208074|gb|GE003361.1|GE003361
EST:     CAATATGTACTGAAGCCGGTTTACTTGCTCTACGAGAACGCCGAATGAAG                         GTGACTCATGCCGACTTTAAGAAGGCCAAGGATAAA
genomic: CAATATGTACTGAAGCCGGTTTACTTGCTCTACGAGAACGCCGAATGAAGgtaagaaatc ... ttttgttcagGTGACTCATGCCGACTTTAAGAAGGCCAAGGATAAA
EST: gi|6454107|gb|AW184855.1|AW184855
EST:     CAATATGTACTGAAGCCGGTTTACTTGCTCTACGAGAACGCCGAATGAAG                         GTGACTCATGCCGACTTTAAGAAGGCCAAGGATAAAGTGATGTTTAAGAAG
genomic: CAATATGTACTGAAGCCGGTTTACTTGCTCTACGAGAACGCCGAATGAAGgtaagaaatc ... ttttgttcagGTGACTCATGCCGACTTTAAGAAGGCCAAGGATAAAGTGATGTTTAAGAAG
EST: gi|7796438|gb|AW781835.1|AW781835
EST:     CAATATGTACTGAAGCCGGTTTACTTGCTCTACGAGAACGCCGAATGAAG                         GTGACTCATGCCGACTTTAAGAAGGCCAAGGATAAAGTGATGTTTAAGAAG
genomic: CAATATGTACTGAAGCCGGTTTACTTGCTCTACGAGAACGCCGAATGAAGgtaagaaatc ... ttttgttcagGTGACTCATGCCGACTTTAAGAAGGCCAAGGATAAAGTGATGTTTAAGAAG
EST: gi|209698517|gb|BW652396.1|BW652396
EST:     CAATATGTACTGAAGCCGGTTTACTTGCTCTACGAGAACGCCGAATGAAG                         GTGACTCATGCCGACTTTAAGAAGGCCAAGGATAAAGTGATGTTTAAGAAG
genomic: CAATATGTACTGAAGCCGGTTTACTTGCTCTACGAGAACGCCGAATGAAGgtaagaaatc ... ttttgttcagGTGACTCATGCCGACTTTAAGAAGGCCAAGGATAAAGTGATGTTTAAGAAG
EST: gi|14258976|gb|BG881884.1|BG881884
EST:     CAATATGTACTGAAGCCGGTTTACTTGCTCTACGAGAACGCCGAATGAAG                         GTGACTCATGCCGACTTTAAGAAGGCCAAGGATAAAGTGATGTTTAAGAAG
genomic: CAATATGTACTGAAGCCGGTTTACTTGCTCTACGAGAACGCCGAATGAAGgtaagaaatc ... ttttgttcagGTGACTCATGCCGACTTTAAGAAGGCCAAGGATAAAGTGATGTTTAAGAAG
EST: gi|18710289|gb|BM522491.1|BM522491
EST:     CAATATGTACTGAAGCCGGTTTACTTGCTCTACGAGAACGCCGAATGAAG                         GTGACTCATGCCGACTTTAAGAAGGCCAAGGATAAAGTGATGTTTAAGAAG
genomic: CAATATGTACTGAAGCCGGTTTACTTGCTCTACGAGAACGCCGAATGAAGgtaagaaatc ... ttttgttcagGTGACTCATGCCGACTTTAAGAAGGCCAAGGATAAAGTGATGTTTAAGAAG
EST: gi|208140582|gb|GD938676.1|GD938676
EST:     CAATATGTACTGAAGCCGGTTTACTTGCTCTACGAGAACGCCGAATGAAG                         GTGACTCATGCCGACTTTAAGAAGGCCAAGGATAAAGTGATGTTTAAGAAG
genomic: CAATATGTACTGAAGCCGGTTTACTTGCTCTACGAGAACGCCGAATGAAGgtaagaaatc ... ttttgttcagGTGACTCATGCCGACTTTAAGAAGGCCAAGGATAAAGTGATGTTTAAGAAG
EST: gi|254313974|gb|GR831603.1|GR831603
EST:     CAATATGTACTGAAGCCGGTTTACTTGCTCTACGAGAACGCCGAATGAAG                         GTGACTCATGCCGACTTTAAGAAGGCCAAGGATAAAGTGATGTTTAAGAAG
genomic: CAATATGTACTGAAGCCGGTTTACTTGCTCTACGAGAACGCCGAATGAAGgtaagaaatc ... ttttgttcagGTGACTCATGCCGACTTTAAGAAGGCCAAGGATAAAGTGATGTTTAAGAAG
EST: gi|193532385|gb|FK492345.1|FK492345
EST:     CAATATGTACTGAAGCCGGTTTACTTGCTCTACGAGAACGCCGAATGAAG                         GTGACTCATGCCGACTTTAAGAAGGCCAAGGATAAAGTGATGTTTAAGAAG
genomic: CAATATGTACTGAAGCCGGTTTACTTGCTCTACGAGAACGCCGAATGAAGgtaagaaatc ... ttttgttcagGTGACTCATGCCGACTTTAAGAAGGCCAAGGATAAAGTGATGTTTAAGAAG
EST: gi|254316119|gb|GR825928.1|GR825928
EST:     CAATATGTACTGAAGCCGGTTTACTTGCTCTACGAGAACGCCGAATGAAG                         GTGACTCATGCCGACTTTAAGAAGGCCAAGGATAAAGTGATGTTTAAGAAG
genomic: CAATATGTACTGAAGCCGGTTTACTTGCTCTACGAGAACGCCGAATGAAGgtaagaaatc ... ttttgttcagGTGACTCATGCCGACTTTAAGAAGGCCAAGGATAAAGTGATGTTTAAGAAG
EST: gi|24205871|gb|BU965124.1|BU965124
EST:     CAATATGTACTGAAGCCGGTTTACTTGCTCTACGAGAACGCCGAATGAAG                         GTGACTCATGCCGACTTTAAGAAGGCCAAGGATAAAGTGATGTTTAAGAAG
genomic: CAATATGTACTGAAGCCGGTTTACTTGCTCTACGAGAACGCCGAATGAAGgtaagaaatc ... ttttgttcagGTGACTCATGCCGACTTTAAGAAGGCCAAGGATAAAGTGATGTTTAAGAAG
EST: gi|22927270|gb|BU544409.1|BU544409
EST:     CAATATGTACTGAAGCCGGTTTACTTGCTCTACGAGAACGCCGAATGAAG                         GTGACTCATGCCGACTTTAAGAAGGCCAAGGATAAAGTGATGTTTAAGAAG
genomic: CAATATGTACTGAAGCCGGTTTACTTGCTCTACGAGAACGCCGAATGAAGgtaagaaatc ... ttttgttcagGTGACTCATGCCGACTTTAAGAAGGCCAAGGATAAAGTGATGTTTAAGAAG
EST: gi|193316137|gb|FK282665.1|FK282665
EST:     CAATATGTACTGAAGCCGGTTTACTTGCTCTACGAGAACGCCGAATGAAG                         GTGACTCATGCCGACTTTAAGAAGGCCAAGGATAAAGTGATGTTTAAGAAG
genomic: CAATATGTACTGAAGCCGGTTTACTTGCTCTACGAGAACGCCGAATGAAGgtaagaaatc ... ttttgttcagGTGACTCATGCCGACTTTAAGAAGGCCAAGGATAAAGTGATGTTTAAGAAG
EST: gi|209713107|gb|BW653814.1|BW653814
EST:     CAATATGTACTGAAGCCGGTTTACTTGCTCTACGAGAACGCCGAATGAAG                         GTGACTCATGCCGACTTTAAGAAGGCCAAGGATAAAGTGATGTTTAAGAAG
genomic: CAATATGTACTGAAGCCGGTTTACTTGCTCTACGAGAACGCCGAATGAAGgtaagaaatc ... ttttgttcagGTGACTCATGCCGACTTTAAGAAGGCCAAGGATAAAGTGATGTTTAAGAAG
EST: gi|193577240|gb|FK536603.1|FK536603
EST:     CAATATGTACTGAAGCCGGTTTACTTGCTCTACGAGAACGCCGAATGAAG                         GAGACTCATGCCGACTTTAAGAAGGCCAAGGA
genomic: CAATATGTACTGAAGCCGGTTTACTTGCTCTACGAGAACGCCGAATGAAGgtaagaaatc ... ttttgttcagGTGACTCATGCCGACTTTAAGAAGGCCAAGGA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGAAGAATTTGTTATGACTAAAGATGAATTCTCTGGAGCTGATATAAAGGCAATATGTACTGAAGCCGGTTTACTTGCTCTACGAGAACGCCGAATGAAGgtaagaaatctctcttgtttatatgatataataatagtactccattgttgtacggaagttgctagttttttacaactcatattgataaagccaaaatata

- - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC