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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGTTTTGTACTCATCAGTTGTTTATCCTCATAACTATGGTTTCATCCCAAGAACTCTGTGTGAAGACAATGATCCAATTGATGTCTTGGTTCTCATGCAGgtaaatttttaccattttaaactcatccaaattatacaagaggccttaatgtataataaaaccaaaatttgccatggttctctcttcatcagtagttaaa...

Basic information

species Glycine max
transcript GLYMA07G05390.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA07G05390.1 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os04g59040.1 (Oryza sativa), 5'ss of exon 5
GGTTTTGTACTCATCAGTTGTTTATCCTCATAACTATGGTTTCATCCCAAGAACTCTGTGTGAAGACAATGATCCAATTGATGTCTTGGTTCTCATGCAGgtaaatttttaccattttaaactcatccaaattatacaagaggccttaatgtataataaaaccaaaatttgccatggttctctcttcatcagtagttaaa--
 ||  | |||||||||||||| ||||| ||||| ||||||||||| ||||| || || |||||||||||||||||||| |||||  |||| || |||||||||| |   |     ||        |  ||  |  | || || ||||  || || || ||   | | | |   |  |       |    | | |  |     
TGTCCTATACTCATCAGTTGTGTATCCCCATAATTATGGTTTCATTCCAAGGACACTTTGTGAAGACAATGATCCAATGGATGTTCTGGTCCTGATGCAGgtaactccattgtgcttcttttcttttaaacatgcaaaacagtcctt--tgcattattaactgatagtgtctgagagcaggggatcagcctgcaagtccttt

upper sequence: GLYMA07G05390.1 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os01g64670.1 (Oryza sativa), 5'ss of exon 4
GGTTTTGTACTCATCAGTTGTTTATCCTCATAACTATGGTTTCATCCCAAGAACTCTGTGTGAAGACAATGATCCAATTGATGTCTTGGTTCTCATGCAGgtaaatttttaccattttaaactcatccaaattatacaagaggccttaatgtataataaaaccaaaatttgccatggttctctcttcatcagtagttaaa
||| |||||||| ||||| ||||| || || ||||| || ||||||||  |||| || || |||||||| |||||||| |||||  | || ||||||||||| |   |    ||  |  |    || |  ||  |   | |     |     ||||| |   ||| |  || |       |   ||   |||        
GGTCTTGTACTCGTCAGTGGTTTACCCCCACAACTACGGCTTCATCCCTCGAACGCTCTGCGAAGACAACGATCCAATGGATGTTCTAGTGCTCATGCAGgtgatcatccttcaactgta---tatgctgatgctgttataaattgtgcg--ataatcactgcaacacatgtccaaacgtttaattg--cag--------

upper sequence: GLYMA07G05390.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G104918_T03 (Zea mays), 5'ss of exon 5
GGTTTTGTACTCATCAGTTGTTTATCCTCATAACTATGGTTTCATCCCAAGAACTCTGTGTGAAGACAATGATCCAATTGATGTCTTGGTTCTCATGCAGgtaaatt--tttaccattttaaactcatccaaattatacaagaggccttaatgtataataaaaccaaaatttgccatggttctctcttcatcagtagttaaa-
 ||  | |||||||||||||| || ||||| || ||||||||||| ||||| ||||| |||||||||||||| ||||| ||||| ||||| || |||||||| | |   | | || |||   |||  ||    | ||    | | | ||  || | |||  |   |  |||  |  |   | |  |     |  |  ||    
AGTCCTTTACTCATCAGTTGTATACCCTCACAATTATGGTTTCATTCCAAGGACTCTTTGTGAAGACAATGACCCAATGGATGTGTTGGTCCTGATGCAGgttagtcagtcttccttttcccacttgtctgtgtcatgtggg-gacatttgtgaagaatgtag--agtattcactctttgtattacaaggcccttgtttctgt

upper sequence: GLYMA07G05390.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G061928_T02 (Zea mays), 5'ss of exon 5
GGTTTTGTACTCATCAGTTGTTTATCCTCATAACTATGGTTTCATCCCAAGAACTCTGTGTGAAGACAATGATCCAATTGATGTCTTGGTTCTCATGCAGgtaaatttttaccattttaaactcatccaaattatacaagaggccttaatgtataataaaaccaaaatttgccatggttctc----tcttcatcagtagttaaa
 ||  |||||||||||||||| || ||||| || ||||||||| | ||||| ||||| |||||||||||||| ||||| ||||| || || || |||||||| | | ||  || ||||  |||  ||    | ||    | ||| ||  || | |||  |    |      |  ||| |  |    || | ||   |  | |  
AGTCCTGTACTCATCAGTTGTATACCCTCACAATTATGGTTTCGTTCCAAGGACTCTTTGTGAAGACAATGACCCAATGGATGTGTTAGTCCTGATGCAGgttagtctt--cctttttccacttgtctgtgtcatgt--ggggcatttgtgaagaatgtagagtattcactctttggattacaaggtccttatttctgttcagg

upper sequence: GLYMA07G05390.1 (Glycine max), 5'ss of exon 5
lower sequence: AT1G01050.1 (Arabidopsis thaliana), 5'ss of exon 5
GGTTTTGTACTCATCAGTTGTTTATCCTCATAACTATGGTTTCATCCCAAGAACTCTGTGTGAAGACAATGATCCAATTGATGTCTTGGTTCTCATGCAGgtaa-atttttaccattttaaactcatccaaattatacaagaggccttaatgtataataaaaccaaaatttgccatggttctctcttcatcagtagttaaa
  || | |||||||||||||| || ||||| |||||||||||  | ||  | ||  |||||||||||||||| || ||||||||||| ||  |||||||||||  | | || |  | ||   |  ||      ||||| |   ||   ||| | |  ||   | || || |   ||  |  |    |              
TATTCTCTACTCATCAGTTGTGTACCCTCACAACTATGGTTTTGTTCCTCGCACATTGTGTGAAGACAATGACCCCATTGATGTCTTAGTCATCATGCAGgtattactctttctttctttctcatattatccctatactatttgcaccaattttttgtatttcaaatatatattattatctttgtgtag------------

upper sequence: GLYMA07G05390.1 (Glycine max), 5'ss of exon 5
lower sequence: AT2G46860.1 (Arabidopsis thaliana), 5'ss of exon 4
GGTTTTGTACTCATCAGTTGTTTATCCTCATAACTATGGTTTCATCCCAAGAACTCTGTGTGAAGACAATGATCCAATTGATGTCTTGGTTCTCATGCAGgtaaatttttaccattttaaactcatccaaattat-acaagaggccttaatgtataataaaaccaaaatttgccatggttctctcttcatcagtagttaaa
| | |||||||| || ||||||||||| || || || || ||||||||| | ||  ||||||||||||| |||||  |||||||| | || || |||||||||| | | |    ||| | |  |||| ||||||| |  | |  ||  | ||| |  |  ||||  | || ||    | |   | |               
GATCTTGTACTCCTCCGTTGTTTATCCACACAATTACGGATTCATCCCACGGACATTGTGTGAAGACAACGATCCTCTTGATGTCCTTGTCCTTATGCAGgtaactgtgt----tttcacaaccatcaaaattatcatcaaataccacattgtgt--tgtaacctgagttagcttctgattcgtgtag-------------

upper sequence: GLYMA07G05390.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv02s0025g02980.t01 (Vitis vinifera), 5'ss of exon 4
GGTTTTGTACTCATCAGTTGTTTATCCTCATAACTATGGTTTCATCCCAAGAACTCTGTGTGAAGACAATGATCCAATTGATGTCTTGGTTCTCATGCAGgtaaatttttaccattttaaactcatccaaattatacaaga--ggccttaatgtataataaaaccaaaatttgcca------tggttctctcttcatcagtagttaaa-----------------
 || || || ||||| || || ||||||||||||||||| ||||| ||  | || || |||||||||||||||||| | ||||| ||  | ||||||||||||  ||   || |  |   | | |  ||| | |||  ||   | | ||  | |  ||  ||||     |  || |      |||   | | || |  ||   | |||                 
TGTCTTATATTCATCTGTGGTGTATCCTCATAACTATGGATTCATTCCCCGTACCCTATGTGAAGACAATGATCCACTGGATGTTTTAATCCTCATGCAGgtag-ttcaaactagatagcatttaatcaa-taataagagctcgtctttgttttgcaactaaacagttgtgggcgagtagattggaagtgtttttacaagc--tcaaactgacatttttgaacag

upper sequence: GLYMA07G05390.1 (Glycine max), 5'ss of exon 5
lower sequence: EFJ27219 (Selaginella moellendorffii), 5'ss of exon 4
GGTTTTGTACTCATCAGTTGTTTATCCTCATAACTATGGTTTCATCCCAAGAACTCTGTGTGAAGACAATGATCCAATTGATGTCTTGGTTCTCATGCAGgtaaatttttaccattttaaactcatccaaattatacaagaggccttaatgtataataaaaccaaaatttgccatggttctctcttcatcagtagttaaa
|||  ||||||| || || || || || || |||||||||||||| ||  | |||||||| |||||||| |||||| | || |||||||| || |||||||||  | ||     | | | ||  |   |   ||     | ||  | |                                                    
GGTGCTGTACTCGTCGGTCGTGTACCCCCACAACTATGGTTTCATTCCTCGTACTCTGTGCGAAGACAACGATCCATTGGACGTCTTGGTCCTGATGCAGgtag-tgttctttttgtaagacgaagtta--ctacggtgggggtttcag---------------------------------------------------

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|254315135|gb|GR830128.1|GR830128
EST:     GAACTCTGTGTGAAGACAATGATCCAATTGATGTCTTGGTTCTCATGCAG                         A
genomic: GAACTCTGTGTGAAGACAATGATCCAATTGATGTCTTGGTTCTCATGCAGgtaaattttt ... gacaatgtag-
EST: gi|254315135|gb|GR830128.1|GR830128
EST:     GAACTCTGTGTGAAGACAATGATCCAATTGATGTCTTGGTTCTCATGCAG                         A
genomic: GAACTCTGTGTGAAGACAATGATCCAATTGATGTCTTGGTTCTCATGCAGgtaaattttt ... gacaatgtag-
EST: gi|254344222|gb|GR851025.1|GR851025
EST:     GAACTCTGTGTGAAGACAATGATCCAATTGATGTCTTGGTTCTCATGCAG                         GAGCCAGTTCTTCCTGGTTGTTTCCTGCGAGCCAGGGCCATTGGATTGATG
genomic: GAACTCTGTGTGAAGACAATGATCCAATTGATGTCTTGGTTCTCATGCAGgtaaattttt ... gacaatgtagGAGCCAGTTCTTCCTGGTTGTTTCCTGCGAGCCAGGGCCATTGGATTGATG
EST: gi|17400209|gb|BM176991.1|BM176991
EST:     GAACTCTGTGTGAAGACAATGATCCAATTGATGTCTTGGTTCTCATGCAG                         GAGCCAGTTCTTCCTGGTTGTTTCCTGCGAGCCAGGGCCATTGGATTGATG
genomic: GAACTCTGTGTGAAGACAATGATCCAATTGATGTCTTGGTTCTCATGCAGgtaaattttt ... gacaatgtagGAGCCAGTTCTTCCTGGTTGTTTCCTGCGAGCCAGGGCCATTGGATTGATG
EST: gi|254315134|gb|GR830127.1|GR830127
EST:     GAACTCTGTGTGAAGACAATGATCCAATTGATGTCTTGGTTCTCATGCAG                         GAGCCAGTTCTTCCTGGTTGTTTCCTGCGAGCCAGGGCCATTGGATTGATG
genomic: GAACTCTGTGTGAAGACAATGATCCAATTGATGTCTTGGTTCTCATGCAGgtaaattttt ... gacaatgtagGAGCCAGTTCTTCCTGGTTGTTTCCTGCGAGCCAGGGCCATTGGATTGATG
EST: gi|254344223|gb|GR851026.1|GR851026
EST:     GAACTCTGTGTGAAGACAATGATCCAATTGATGTCTTGGTTCTCATGCAG                         GAGCCAGTTCTTCCTGGTTGTTTCCTGCGAGCCAGGGCCATTGGATTGATG
genomic: GAACTCTGTGTGAAGACAATGATCCAATTGATGTCTTGGTTCTCATGCAGgtaaattttt ... gacaatgtagGAGCCAGTTCTTCCTGGTTGTTTCCTGCGAGCCAGGGCCATTGGATTGATG
EST: gi|18040990|gb|BM309284.1|BM309284
EST:     GAACTCTGTGTGAAGACAATGATCCAATTGATGTCTTGGTTCTCATGCAG                         GAGCCAGTTCTTCCTGGTTGTTTCCTGCGAGCCAGGGCCATTGGATTGATG
genomic: GAACTCTGTGTGAAGACAATGATCCAATTGATGTCTTGGTTCTCATGCAGgtaaattttt ... gacaatgtagGAGCCAGTTCTTCCTGGTTGTTTCCTGCGAGCCAGGGCCATTGGATTGATG
EST: gi|209698574|gb|BW652427.1|BW652427
EST:     GAACTCTGTGTGAAGACAATGATCCAATTGATGTCTTGGTTCTCATGCAG                         GAGCCAGTTCTTCCTGGTTGTTTCCTGCGAGCCAGGGCCATTGGATTGATG
genomic: GAACTCTGTGTGAAGACAATGATCCAATTGATGTCTTGGTTCTCATGCAGgtaaattttt ... gacaatgtagGAGCCAGTTCTTCCTGGTTGTTTCCTGCGAGCCAGGGCCATTGGATTGATG
EST: gi|151399288|gb|EV269159.1|EV269159
EST:     GAACTCTGTGTGAAGACAATGATCCAATTGATGTCTTGGTTCTCATGCAG                         GAGCCAGTTCTTCCTGGTTGTTTCCTGCGAGCCAGGGCCATTGGATTGATG
genomic: GAACTCTGTGTGAAGACAATGATCCAATTGATGTCTTGGTTCTCATGCAGgtaaattttt ... gacaatgtagGAGCCAGTTCTTCCTGGTTGTTTCCTGCGAGCCAGGGCCATTGGATTGATG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGTTTTGTACTCATCAGTTGTTTATCCTCATAACTATGGTTTCATCCCAAGAACTCTGTGTGAAGACAATGATCCAATTGATGTCTTGGTTCTCATGCAGgtaaatttttaccattttaaactcatccaaattatacaagaggccttaatgtataataaaaccaaaatttgccatggttctctcttcatcagtagttaaa

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