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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGTGAGGCCTTTTAATTGGATTGGACCACGAATGGATTTCATTCCCGGCATTGATGGCCCAAGTGAGGGTGTTCCTCGGGTTCTGGCATGCTTTAGCAATgtgagtttacattttgatttagactttgtttaagcttgtatatatgttactcgatatttttggataatgattctaaatattttctccattccttttctgtag

Basic information

species Glycine max
transcript GLYMA12G30490.2
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA12G30490.2 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os01g73790.1 (Oryza sativa), 5'ss of exon 5
TGTGAGGCCTTTTAATTGGATTGGACCACGAATGGATTTCATTCCCGGCATTGATGGCCCAAGTGAGGGTGTTCCTCGGGTTCTGGCATGCTTTAGCAATgtgagtttac-attttgatttagactttgtttaagcttgtatatatgttactcgatatttttggataatgattctaaatattttctccattccttttctgtag
|||||| ||||| ||||||||||||||| ||||||| || ||||| ||  ||||||| || ||||||||||||||||||||| ||||||| || || || ||  ||  || | |    ||  ||   |  |  | ||    |   |  |  ||| | || |   |  |||        ||| |   | ||   ||| | |   
TGTGAGACCTTTCAATTGGATTGGACCAAGAATGGACTTTATTCCTGGTGTTGATGGTCCTAGTGAGGGTGTTCCTCGGGTTTTGGCATGTTTCAGTAACgtatgtcaaccagtccctttctgagaataatatacctccatttcgttatggtcgtttttctcataagatg--------tatgtcgccaatgaatttgcag---

upper sequence: GLYMA12G30490.2 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G167872_T02 (Zea mays), 5'ss of exon 3
TGTGAGGCCTTTTAATTGGATTGGACCACGAATGGATTTCATTCCCGGCATTGATGGCCCAAGTGAGGGTGTTCCTCGGGTTCTGGCATGCTTTAGCAATgtgagtttacattttgatttagactttgtttaagcttgtatatatgttactcgatatttttggataatgattctaaatattttctccattccttttctgtag
 ||||| ||||||||||||||||| ||| | |||||||||||||| ||  | ||||| || ||||||||||| || ||||| ||||| ||||| || || ||  ||  || | ||  ||||   ||| |||     ||  |||   |  ||  || ||     |||   |||||    |     | |||   ||| | |   
CGTGAGACCTTTTAATTGGATTGGGCCAAGGATGGATTTCATTCCTGGTGTCGATGGTCCTAGTGAGGGTGTACCCCGGGTGCTGGCTTGCTTCAGTAACgtatgtgcacttgttttttta---tttattt---tctgagtatggttggcttaattttgcaccatagc-attcttctgagaagatgcatggttttgcag---

upper sequence: GLYMA12G30490.2 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G063949_T01 (Zea mays), 5'ss of exon 5
TGTGAGGCCTTTTAATTGGATTGGACCACGAATGGATTTCATTCCCGGCATTGATGGCCCAAGTGAGGGTGTTCCTCGGGTTCTGGCATGCTTTAGCAATgtgagt----ttacattttgatttagac--tttgtttaagcttgtatatatgttactcgatatttttggataatg---attctaaatattttctccattccttttctgtag
 ||||| ||||| ||||||||||||||| | ||||| |||||||| ||  ||||||| || ||||| ||||| ||||||||| |||| ||||| || || || |||    ||   | ||| |   ||   ||   ||||   | |||  |   |  ||  | || |  ||  |||     |   |||  |||  |                
CGTGAGACCTTTCAATTGGATTGGACCAAGGATGGACTTCATTCCTGGTGTTGATGGTCCTAGTGAAGGTGTGCCTCGGGTTTTGGCTTGCTTCAGTAACgtaagtgttcttgtttcttggtgaggatcattatcttaattatttatgcaccatgttcagtcttctcagaagatgcacggtaccaatggttttgcag--------------

upper sequence: GLYMA12G30490.2 (Glycine max), 5'ss of exon 5
lower sequence: AT2G27860.1 (Arabidopsis thaliana), 5'ss of exon 5
TGTGAGGCCTTTTAATTGGATTGGACCACGAATGGATTTCATTCCCGGCATTGATGGCCCAAGTGAGGGTGTTCCTCGGGTTCTGGCATGCTTTAGCAATgtgagtttacattttgatttagactttgtttaagcttgtatatatgttactcgatatttttggataatgattctaaatattttctccattccttttctgtag
 ||  | |||||||| |||||||||||  | ||||||||||| |||||||||||||| || || || ||||| || || || || || |||||||| || || ||| | ||  |  |  || | |      | ||| || | | | |   |  |   |||| | |||||  |||  || | |  | ||              
CGTACGACCTTTTAACTGGATTGGACCTAGGATGGATTTCATCCCCGGCATTGATGGTCCTAGCGAAGGTGTCCCACGTGTCCTTGCCTGCTTTAGTAACgtaagtgttcaaatccaagtata-taacccaatgctagtctgtgtatatatgcaagcttttagttaatgcatctctatctatctttcag-------------

upper sequence: GLYMA12G30490.2 (Glycine max), 5'ss of exon 5
lower sequence: AT1G08200.1 (Arabidopsis thaliana), 5'ss of exon 5
TGTGAGGCCTTTTAATTGGATTGGACCACGAATGGATTTCATTCCCGGCATTGATGGCCCAAGTGAGGGTGTTCCTCGGGTTCTGGCATGCTTTAGCAATgtgagtttacattttgatttagactttgtttaagcttgt-atatatgttactcgatatttttggataatgattctaaatattttctccattccttttctgtag
||| || || || || |||||||||||  | ||||||||||| || ||||||||||| || || |||||||| || |||||||| || |||||||| || || ||| ||||   | | |   |     |     ||| | ||   ||   ||  |  ||||||  |||   ||       | || ||                
TGTAAGACCATTCAACTGGATTGGACCTAGGATGGATTTCATCCCTGGCATTGATGGTCCTAGCGAGGGTGTCCCACGGGTTCTAGCGTGCTTTAGTAACgtaagtatacaggcttagtccaatgacctgagttcttctcatggctgcagcttaacttttttgtttaactttttggtgggtattttcag--------------

upper sequence: GLYMA12G30490.2 (Glycine max), 5'ss of exon 5
lower sequence: Vv06s0061g01120.t01 (Vitis vinifera), 5'ss of exon 5
TGTGAGGCCTTTTAATTGGATTGGACCACGAATGGATTTCATTCCCGGCATTGATGGCCCAAGTGAGGGTGTTCCTCGGGTTCTGGCATGCTTTAGCAATgtgagtttacattttgatttagactttgtttaagcttgtatatatgttactcgatatttttggataatgattctaaatattttctccattccttttctgtag
||||||||| ||||| |||||||| ||  |||||||||| ||||| ||||||||||| || || ||||| |||||  |||||||||||||||| || ||||| |||||  |  |   |    ||    ||||   | |||| | | ||  |     ||| |   || ||||  |     ||||||||     |         
TGTGAGGCCCTTTAACTGGATTGGGCCCAGAATGGATTTTATTCCTGGCATTGATGGTCCTAGCGAGGGCGTTCCAAGGGTTCTGGCATGCTTCAGTAATgttagtttcaacatctgtcataac---atttag--tagtattttttttctt-----tttcttactactgatcttgctctttttctcccacaatag-------

upper sequence: GLYMA12G30490.2 (Glycine max), 5'ss of exon 5
lower sequence: Vv03s0017g00680.t01 (Vitis vinifera), 5'ss of exon 5
TGTGAGGCCTTTTAATTGGATTGGACCACGAATGGATTTCATTCCCGGCATTGATGGCCCAAGTGAGGGTGTTCCTCGGGTTCTGGCATGCTTTAGCAATgtgagtttacattttgatttagactttgtttaagcttgtatatatgttactcgatatttttggataatgattctaaatattttctccattccttttctgtag
||||||||||||||| |||||||| ||  |||||||||||||||| ||||||||||| || ||||| ||||||||  |||||||||||||||| |||||||| |||||  |  |   |    || | | ||  | |||    ||| ||  || || ||||| |    ||||  |     ||||||||   | |         
TGTGAGGCCTTTTAACTGGATTGGGCCTAGAATGGATTTCATTCCTGGCATTGATGGTCCTAGTGAAGGTGTTCCAAGGGTTCTGGCATGCTTCAGCAATgttagtttcaacatctgtcataacatggctt--gtttggtagtatttttttc-attttttttgtctctgatcttgctctttttctcccaccgtag-------

upper sequence: GLYMA12G30490.2 (Glycine max), 5'ss of exon 5
lower sequence: PP1S379_19V6.1 (Physcomitrella patens), 5'ss of exon 3
TGTGAGGCCTTTTAATTGGATTGGACCACGAATGGATTTCATTCCCGGCATTGATGGCCCAAGTGAGGGTGTTCCTCGGGTTCTGGCATGCTTTAGCAATgtgagtttacattttgatttagactttgtttaagcttgtatatatgt-tactcgatatttttggataatgattctaaatattttctccattccttttctgtag--------------------------------------------
 ||  | || || || |||||||| ||||| ||||||||||| || |||||||| || ||||||||     ||||||| || ||||||||||| |||||||| | |   ||       || | |  |   |   | ||  |     | |  |  || |||    ||  | |||  || |  |   | |    |     | |                                              
AGTTCGACCATTCAACTGGATTGGCCCACGCATGGATTTCATACCAGGCATTGACGGACCAAGTGACTCAATTCCTCGTGTCCTGGCATGCTTCAGCAATgtaattcgccagcacttctttggcgcttcctcttcctgcttgcccatctgttttatttttaattatttttatttcaatttctcatttccgatcaaaattatgattggtgtggaggttatccacttgatctgatggcaaaaactgcag

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|9203920|gb|BE330144.1|BE330144
EST:     TTGATGGCCCAAGTGAGGGTGTTCCTCGGGTTCTGGCATGCTTTAGCAAT                         AATCTCCTTCGTGGAGAGCCCCTCAAGCTTGTGGATGGTGGCCAATCCCCG
genomic: TTGATGGCCCAAGTGAGGGTGTTCCTCGGGTTCTGGCATGCTTTAGCAATgtgagtttac ... ttttctgtagAATCTCCTCCGTGGAGAGCCCCTCAAGCTTGTGGATGGTGGCCAATCCCAG
EST: gi|7924894|gb|AW830920.1|AW830920
EST:     TTGATGGCCCAAGTGAGGGTGTTCCTCGGGTTCTGGCATGCTTTANCAAT                         AATCTCCTCCGTGGAGAGCCCCTCAAGCTTGTGGATGGTGGCCAATCCCAG
genomic: TTGATGGCCCAAGTGAGGGTGTTCCTCGGGTTCTGGCATGCTTTAGCAATgtgagtttac ... ttttctgtagAATCTCCTCCGTGGAGAGCCCCTCAAGCTTGTGGATGGTGGCCAATCCCAG
EST: gi|11275155|gb|BF325478.1|BF325478
EST:     TGATGGCCCAAGTGGAGG-TGTTCCTCGGGATCTGGCATGCTTTAGCAAT                         AATCTTCTCCGGGGAGAGCCCCCCAAGCTTGGGGATGGTGGGCAATCCCAA
genomic: TGATGGCCCAAGTG-AGGGTGTTCCTCGGGTTCTGGCATGCTTTAGCAATgtgagtttac ... ttttctgtagAATCTCCTCCGTGGAGAGCCCCTCAAGCTTGTGGATGGTGGCCAATCCCAG
EST: gi|209729039|gb|BW651777.1|BW651777
EST:     TTGATGGCCCAAGTGAGGGTGTTCCTCGGGTTCTGGCATGCTTTAGCAAT                         AATCTCCTCCGTGGAGAGCCCCTCAAGCTTGTGGATGGTGGCCA-TCCCAG
genomic: TTGATGGCCCAAGTGAGGGTGTTCCTCGGGTTCTGGCATGCTTTAGCAATgtgagtttac ... ttttctgtagAATCTCCTCCGTGGAGAGCCCCTCAAGCTTGTGGATGGTGGCCAATCCCAG
EST: gi|12773988|gb|BG238915.1|BG238915
EST:     TTGATGGCCCAAGTGAGGGTGTTCCTCGGGTTCTGGCATGCTTTANCAAT                         AATCTCCTCCGTGGAGAGCCCCTCAAGCTTGTGGATGGTGGCCAATCCCAG
genomic: TTGATGGCCCAAGTGAGGGTGTTCCTCGGGTTCTGGCATGCTTTAGCAATgtgagtttac ... ttttctgtagAATCTCCTCCGTGGAGAGCCCCTCAAGCTTGTGGATGGTGGCCAATCCCAG
EST: gi|5508936|gb|AI855494.1|AI855494
EST:     TTGATGGCCCAAGTGAGGGTGTTCCTCGGGTTCTGGCATGCTTTAGCAAT                         AATCTCCTCCGTGGAGAGCCCCTCAAGCTTGTGGATGGTGGCCAATCCCAG
genomic: TTGATGGCCCAAGTGAGGGTGTTCCTCGGGTTCTGGCATGCTTTAGCAATgtgagtttac ... ttttctgtagAATCTCCTCCGTGGAGAGCCCCTCAAGCTTGTGGATGGTGGCCAATCCCAG