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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCTGCCCATGAGAAAATTGGAGTTGTTGATTCTCAGTGGATTATTCATCAAAGTGTTCCCTCACTAGGGAATCAGgtaatttgttttccatgattattactgttagatttaaatagttttactcatattgccgatgtaagatatgtatgtttttctttgcttttgtag

Basic information

species Glycine max
transcript GLYMA05G30830.1
intron # 13
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G30830.1 (Glycine max), 5'ss of exon 13
lower sequence: Vv14s0036g00790.t01 (Vitis vinifera), 5'ss of exon 1
-------------------------CCTGCCCATGAGAAAATTGGAGTTGTTGATTCTCAGTGGATTATTCATCAAAGTGTTCCCTCACTAGGGAATCAGgtaatttgttttccatgattattactgttagatttaaatagttttactcatattgccgatgtaagatatgtatgtttttctttgcttttgtag-----------------
                         |||||||||||||||||||||||||| |||||||| |||||  ||||||||| ||||||||  || ||||| ||||||| |  | |||    |   || ||  || ||||  ||   | ||  | | |||   ||| || | || ||||   |    | ||   |||                  
TGGAACTTCCTCGTCTTTGAAACAACCTGCCCATGAGAAAATTGGAGTTGTAGATTCTCAATGGATCGTTCATCAAACTGTTCCCTTGCTCGGGAACCAGgtaaatcatcttcagaaaaattttctactacatttttatttatataaacgttttgt-aatg-aaaagatctatgaaatagaatactggagtaaccattatgtttttatag

upper sequence: GLYMA05G30830.1 (Glycine max), 5'ss of exon 13
lower sequence: Vv00s0187g00030.t01 (Vitis vinifera), 5'ss of exon 8
CCTGCCCATGAGAAAATTGGAGTTGTTGATTCTCAGTGGATTATTCATCAAAGTGTTCCCTCACTAGGGAATCAGgtaatttgttttccatgattattactgttagatttaaatagttttactcatattgccgatgtaagatatgtatgtttttctttgcttttgtag-----------------
|||||||||||||||||||||||||| |||||||| ||||| |||||||||| | ||||||| || ||||| ||||||| |  | |||    |   || ||  || ||||  ||   | ||  | | |||   ||| || | || ||||   |    | ||   |||                  
CCTGCCCATGAGAAAATTGGAGTTGTAGATTCTCAATGGATCATTCATCAAACTTTTCCCTCGCTTGGGAACCAGgtaaatcatcttcagaaaaattttctactacatttttatttatataaacgttttgt-aatg-aaaagatctatgaaatagaatactggagtaaccgttatgtttttatag

upper sequence: GLYMA05G30830.1 (Glycine max), 5'ss of exon 13
lower sequence: Vv01s0137g00770.t01 (Vitis vinifera), 5'ss of exon 13
CCTGCCCATGAGAAAATTGGAGTTGTTGATTCTCAGTGGATTATTCATCAAAGTGTTCCCTCACTAGGGAATCAGgtaatttgttttccatgattattactgttagattt----------aaatagttt-tactcatattgccgatg---taagata-tgtatgtttttctttgcttttgtag
||||||||||||||||||||||| || |||||||| |||||  ||||||||| ||||||||| || ||||| ||||||| |  | |||    |   || ||  || ||||          ||||  ||| || | | |    | |||   ||  ||| || ||      || || |||| |||
CCTGCCCATGAGAAAATTGGAGTCGTAGATTCTCAATGGATCGTTCATCAAACTGTTCCCTCGCTTGGGAACCAGgtaaatcatcttcagaaaacttttctactacatttttatttatataaatgttttgtaatgaaaagatctatgaaatagaatactggattaaccgctatgtttttatag

upper sequence: GLYMA05G30830.1 (Glycine max), 5'ss of exon 13
lower sequence: Vv17s0000g02780.t01 (Vitis vinifera), 5'ss of exon 1
-------------------------CCTGCCCATGAGAAAATTGGAGTTGTTGATTCTCAGTGGATTATTCATCAAAGTGTTCCCTCACTAGGGAATCAGgtaatttgttttccatgattattactgttagatt----------taaatagttt-tactcatattgccgatg---taagatatgtatgtttttctt-tgcttttgtag
                         |||||||||||||||||||||||||| |||||||| |||||  ||||||||| ||||||||| || ||||| ||||||| |  | |||    |   || ||  || |||          ||||   ||| || | | |    | |||   ||  |||     ||     || || |||| |||
TGGAACTTCCTCGTCTTTGAAACAACCTGCCCATGAGAAAATTGGAGTTGTAGATTCTCAATGGATCGTTCATCAAACTGTTCCCTCGCTTGGGAACCAGgtaaataatcttcagaaaaattttctactacattgttatttatataaacgttttgtaatgaaaagatctatgaaatagaatactggagtaaccgttatgtttttatag

upper sequence: GLYMA05G30830.1 (Glycine max), 5'ss of exon 13
lower sequence: Vv13s0106g00570.t01 (Vitis vinifera), 5'ss of exon 4
CCTGCCCATGAGAAAATTGGAGTTGTTGATTCTCAGTGGATTATTCATCAAAGTGTTCCCTCACTAGGGAATCAGgtaatttgttttccatgattattactgttagatttaaatagttttactcatattgccgatgtaagatatgtatgtttttctttgcttttgtag-----------------
|||||||||||||||||||||||||| ||||||||  ||||  ||||||||| ||||||||| || ||||| ||||||| |  | |||    |   || ||  || ||||  ||   | ||  | | |||   ||| || | || ||||   |    | ||   |||                  
CCTGCCCATGAGAAAATTGGAGTTGTAGATTCTCAAGGGATCGTTCATCAAACTGTTCCCTCGCTTGGGAACCAGgtaaatcatcttcagaaaaattttctactacatttttatttatataaacgttttgt-aatg-aaaagatctatgaaatagaatactggagtaaccgttatgtttttatag

upper sequence: GLYMA05G30830.1 (Glycine max), 5'ss of exon 13
lower sequence: PP1S70_58V6.2 (Physcomitrella patens), 5'ss of exon 13
CCTGCCCATGAGAAAATTGGAGTTGTTGATTCTCAGTGGATTATTCATCAAAGTGTTCCCTCACTAGGGAATCAGgtaatttgttttccatgattattactgttagatttaaatagttttactcatattgccgatgtaagatatgtatgtttttctttgct-tttgtag-----------
||||| ||||| |||||||||||||| ||| ||||||||||    ||||    ||| |  || |||   |    |||  | ||||   ||  |  |||     | | | |  ||  || | |  | || || | | |||  |    ||| | ||| ||    ||| |||           
CCTGCACATGATAAAATTGGAGTTGTAGATGCTCAGTGGATCCGACATCGGGTTGTGCTATCTCTAAATAGCTCGgtt-tgtgttcctcacaaccatt--cactcgttct--atgattcttccgagatcgcagttctaatgtcgaaatgctattcgttatggtttatagtaaagcaatat

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|10256404|gb|BE824170.1|BE824170
EST:     TTGATTCTCAGTGGATTATTCATCAAAGTGTTCCCTCACTAGGGAATCAG                         GGAGAATCACAATCTGGGAAAGCGCCATGGCAAGGG
genomic: TTGATTCTCAGTGGATTATTCATCAAAGTGTTCCCTCACTAGGGAATCAGgtaatttgtt ... gcttttgtagGGAGAATCACAATCTGGGAAAGCGCCATGGCAAGGG
EST: gi|207713488|gb|GD696171.1|GD696171
EST:     TTGATTCTCAGTGGATTATTCATCAAAGTGTTCCCTCACTAGGGAATCAG                         GGAGAATCACAATCTGGGAAAGCGCCATGGCAAGGG
genomic: TTGATTCTCAGTGGATTATTCATCAAAGTGTTCCCTCACTAGGGAATCAGgtaatttgtt ... gcttttgtagGGAGAATCACAATCTGGGAAAGCGCCATGGCAAGGG
EST: gi|13312427|gb|BG406078.1|BG406078
EST:     TTGATTCTCAGTGGATTATTCATCAAAGTGTTCCCTCACTAGGGAATCAG                         GGAGAATCACAATCTGGGAAAGCGCCATGGCAAGGG
genomic: TTGATTCTCAGTGGATTATTCATCAAAGTGTTCCCTCACTAGGGAATCAGgtaatttgtt ... gcttttgtagGGAGAATCACAATCTGGGAAAGCGCCATGGCAAGGG
EST: gi|7146333|gb|AW508255.1|AW508255
EST:     TTGATTCTCAGTGGATTATTCATCAAAGTGTTCCCTCACTAGGGAATCAG                         GGAGAATCACAATCTGGGAAAGCGCCATGGCAAGGG
genomic: TTGATTCTCAGTGGATTATTCATCAAAGTGTTCCCTCACTAGGGAATCAGgtaatttgtt ... gcttttgtagGGAGAATCACAATCTGGGAAAGCGCCATGGCAAGGG
EST: gi|193459553|gb|FK423410.1|FK423410
EST:     TTGATTCTCAGTGGATTATTCATCAAAGTGTTCCCTCACTAGGGAATCAG                         GGAGAATCACAATCTGGGAAAGCGCCATGGCAAGGG
genomic: TTGATTCTCAGTGGATTATTCATCAAAGTGTTCCCTCACTAGGGAATCAGgtaatttgtt ... gcttttgtagGGAGAATCACAATCTGGGAAAGCGCCATGGCAAGGG
EST: gi|14009195|gb|BG725799.1|BG725799
EST:     TTGATTCTCAGTGGATTATTCATCAAAGTGTTCCCTCACTAGGGAATCAG                         GGAGAATCACAATCTGGGAAAGCGCCATGGCAAGGG
genomic: TTGATTCTCAGTGGATTATTCATCAAAGTGTTCCCTCACTAGGGAATCAGgtaatttgtt ... gcttttgtagGGAGAATCACAATCTGGGAAAGCGCCATGGCAAGGG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CCTGCCCATGAGAAAATTGGAGTTGTTGATTCTCAGTGGATTATTCATCAAAGTGTTCCCTCACTAGGGAATCAGgtaatttgttttccatgattattactgttagatttaaatagttttactcatattgccgatgtaagatatgtatgtttttctttgcttttgtag

- - - - - - - - - - - - - - - - - AGTGGA