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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCTCTACAGGCCTCCTCGATGCTCGCACTGCTCAATCTGTAATAACTGTGTGGAACGGTTTGACCATCACTGTCCTTGGGTTGGGCAGTGTATTGGGCTGgtatgttggatcttttgtctcttgagtgttattttattctttttttctttttgtgtgaagaatgttttgggggaagagtagcttaaccccattgttaagt...

Basic information

species Glycine max
transcript GLYMA16G05670.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G05670.2 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os09g33450.2 (Oryza sativa), 5'ss of exon 4
GCTCTACAGGCCTCCTCGATGCTCGCACTGCTCAATCTGTAATAACTGTGTGGAACGGTTTGACCATCACTGTCCTTGGGTTGGGCAGTGTATTGGGCTGgtatgttggatcttt-tgtctcttgagtgttattttattctttttttctttttgtgtgaaga----atgttttg-ggggaagagtagctt--aaccccattgttaagt-------------------------------------------------------------------------------------
||| ||| |||| ||||||||||| ||||| || || ||||||||||||||||| || ||||| |||||||| |||||||||||||| || |||||   |||| ||   |||||  ||| |    ||  |||   ||| ||| ||  |  || |  ||||||    || |  || | ||    || |  |  |  ||  |||||   |                                                                                     
GCTGTACCGGCCACCTCGATGCTCTCACTGTTCTATATGTAATAACTGTGTGGAGCGTTTTGATCATCACTGCCCTTGGGTTGGGCAATGCATTGGAAGGgtaagt---atcttgatgtgttggaaggtttaagatatccttattg-caattagcttgaagatttgatatcatgtgcggtgttgtggtctgtatacctcttgttggattttctatattagatattagtagattgttagttactactttaaagttttaacaagtcagcgctaattatcaacttatctgctgcag

upper sequence: GLYMA16G05670.2 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os08g42370.3 (Oryza sativa), 5'ss of exon 3
GCTCTACAGGCCTCCTCGATGCTCGCACTGCTCAATCTGTAATAACTGTGTGGAACGGTTTGACCATCACTGTCCTTGGGTTGGGCAGTGTATTGGGCTGgtatgttggatcttttgtctcttgagtgttattttattctttttttctttttgtgtgaagaatgt---tttgggggaag--agtagcttaaccccatt-gttaagt-----------------------------------------------
||| ||| |||| ||||||||||| ||||| || || || || |||||||||||||||||||| ||||||||||| |||||||| || || || || || ||| ||      |  ||| | |  ||   |  | ||    |  || |  |  |   ||    ||    ||||   | ||  | |     |   |  ||  || ||                                                
GCTTTACCGGCCACCTCGATGCTCACACTGTTCGATATGCAACAACTGTGTGGAACGGTTTGATCATCACTGTCCATGGGTTGGCCAATGCATAGGACTTgtaagta-----tcatgtttttccagcagttctgtacctatccttaccgtaggaaagacatgtgcgtatttgtttggagttattcttccagtgcttttcattgagctctcttcaaatcaacttgagcctaatcataaagcatatttggtgcag

upper sequence: GLYMA16G05670.2 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os01g70100.1 (Oryza sativa), 5'ss of exon 3
GCTCTACAGGCCTCCTCGATGCTCGCACTGCTCAATCTGTAATAACTGTGTGGAACGGTTTGACCATCACTGTCCTTGGGTTGGGCAGTGTATTGGGCTGgtatgttggatcttttgtctcttgagtgttattttattctt--------tttttctttttgtgtgaagaatgttttgggggaagagtagcttaaccccattgttaagt
||| ||| |||||||||| ||||| || ||||| ||||| || ||||| || ||||| |||||||||||||| || ||||||||||| || || || || ||| |||    | | ||    |    |   |||   | |||        | | | |  |  ||||      ||||  |   | ||| || ||| |  | |        
GCTGTACCGGCCTCCTCGTTGCTCCCATTGCTCTATCTGCAACAACTGCGTTGAACGTTTTGACCATCACTGCCCATGGGTTGGGCAATGCATAGGACTTgtaagttcatacatatgcaaatctgataaaattccctacttacataaactgtatgtactgatgtgttagccgtttcagtccatgaggagtttatctgctt--------

upper sequence: GLYMA16G05670.2 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM5G868588_T01 (Zea mays), 5'ss of exon 3
GCTCTACAGGCCTCCTCGATGCTCGCACTGCTCAATCTGTAATAACTGTGTGGAACGGTTTGACCATCACTGTCCTTGGGTTGGGCAGTGTATTGGGCTGgtatgtt---ggatcttttgtctcttgagtgttattttattctttttttctttttgtgtgaagaatgttttgggggaagagtagcttaaccccattgttaagt
||| ||||| || ||||||||||| |||||||| |||||||||||||||||||| || |||||||| ||||| ||||||||||| || || || ||  ||||| |||   | ||   |||  |  |        | || ||    | | | ||     | ||   ||| |   |    |  || |  ||   || |  | || 
GCTGTACAGACCACCTCGATGCTCACACTGCTCTATCTGTAATAACTGTGTGGAGCGCTTTGACCACCACTGCCCTTGGGTTGGCCAATGCATAGGATTGgtaagtttgggaataccttgaatagttt-cacagtgttgttgcaatatgcattacagattaaacttgtatccagtagtgt-taacagaagagcactcatcag-

upper sequence: GLYMA16G05670.2 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G179002_T03 (Zea mays), 5'ss of exon 3
GCTCTACAGGCCTCCTCGATGCTCGCACTGCTCAATCTGTAATAACTGTGTGGAACGGTTTGACCATCACTGTCCTTGGGTTGGGCAGTGTATTGGGCTGgtatgttggatcttttgtctcttgagtgttattttattctttttttctttttgtgtgaagaatgttttggggg--aagagtagcttaaccccattgttaagt--
||| ||||| || ||||||||||| ||||| || |||||||||||||||||||| || ||||| || ||||| ||||||||||||||||| || ||  ||||| ||| ||       |  ||||| |  | |   ||| || ||    | |    |  ||  |  | | |     |  |||    | |    |||| | ||   
GCTGTACAGACCACCTCGATGCTCACACTGTTCTATCTGTAATAACTGTGTGGAGCGCTTTGATCACCACTGCCCTTGGGTTGGGCAGTGCATAGGATTGgtaagtttgaga----ataacttgaatagtttagcattgttgttgcaatatgcattacagtttaatcttgtatccagtagtgttatcagaagattgctcagcgg

upper sequence: GLYMA16G05670.2 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G068657_T02 (Zea mays), 5'ss of exon 3
GCTCTACAGGCCTCCTCGATGCTCGCACTGCTCAATCTGTAATAACTGTGTGGAACGGTTTGACCATCACTGTCCTTGGGTTGGGCAGTGTATTGGGCTGgtatgttg-----gatcttt---tgtctcttgagtgttattttattctttttttctttttgtgtgaagaatgttttgggggaagagtagcttaaccccattgttaagt----------------------------------------
| | ||| | || ||||||||||| ||||| || || || ||||||||||||||||||||||| ||||||||||| ||||| || ||||| || || |||||| |||      |||   |   ||| || |  | ||  |  ||||  ||   |   | | |      | | |||  ||| |    |   || |     |   ||| |                                        
GTTGTACCGACCACCTCGATGCTCACACTGTTCCATTTGCAATAACTGTGTGGAACGGTTTGATCATCACTGTCCATGGGTCGGCCAGTGCATAGGACTGgtaagttacacaagattactaggtgtttcataggcgtcctcatattacttgaattgatatttagagctactatttctgggtacattttttttgaatgt-tgactaactttctattttgttaagactgaccatcaatgtatttgtgcag

upper sequence: GLYMA16G05670.2 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM5G821611_T01 (Zea mays), 5'ss of exon 3
GCTCTACAGGCCTCCTCGATGCTCGCACTGCTCAATCTGTAATAACTGTGTGGAACGGTTTGACCATCACTGTCCTTGGGTTGGGCAGTGTATTGGGCTGgtatgttg-----gatctt--ttgtctcttgagtgttattttattctttttttctttttgtgtgaaga-----------atgttttgggggaa-------gagtagcttaaccccattgttaagt----------------------------------------------------
||| ||| | || ||||||||||| ||||| || || || ||||||||||||||||||||||| ||||||||||| ||||| || ||||| || || |||||| |||      |||  |   ||| |    || ||  || ||||       ||    ||||   | |           |||||| | || |        | |||| ||  |    || ||||||                                                    
GCTGTACCGACCACCTCGATGCTCACACTGTTCCATTTGCAATAACTGTGTGGAACGGTTTGATCATCACTGTCCATGGGTCGGCCAGTGCATAGGACTGgtaagttactcgagatgctagctgttttaatagcgtccttatattagaacaatcgcggtgtgcacatacacttgaattgatgtttggaggtactctttctgggtagattttcattttt-ttaagttgttgactaactttctattctgttaagcctgatcatcaacatatttgtgcag

upper sequence: GLYMA16G05670.2 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G433942_T01 (Zea mays), 5'ss of exon 3
GCTCTACAGGCCTCCTCGATGCTCGCACTGCTCAATCTGTAATAACTGTGTGGAACGGTTTGACCATCACTGTCCTTGGGTTGGGCAGTGTATTGGGCTGgtatgttggatcttttgtctcttgagtgttattttattctttttttctttttgtgtgaagaatgttttgggggaagagtagcttaaccccattgttaagt---
| | |||||||||||||| ||||| || ||||| ||||| || ||||| || ||||| |||||||||||||| || |||||||| || || || || || ||| |||       ||  | |||| |  |      |   | | ||||| ||  | |  | ||| |||||     |   ||  ||||     |       |   
GTTGTACAGGCCTCCTCGTTGCTCCCATTGCTCTATCTGCAACAACTGCGTAGAACGTTTTGACCATCACTGCCCCTGGGTTGGACAATGCATAGGACTTgtaagtttatgaagttaacacttgtgactcggaa-agcatgtctttctgttcatat--acaatcttttgccaacactttatgttaaatatttcagcccctgtt

upper sequence: GLYMA16G05670.2 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G034833_T02 (Zea mays), 5'ss of exon 3
GCTCTACAGGCCTCCTCGATGCTCGCACTGCTCAATCTGTAATAACTGTGTGGAACGGTTTGACCATCACTGTCCTTGGGTTGGGCAGTGTATTGGGCTGgtatgttggatcttttgtctcttgagtgttattttattctttttttctttttgtgtgaagaatgttttgggggaagagta-gcttaaccccattgttaagt--
| | |||||||||||||| ||||| || ||||| ||||| || ||||| ||||| || |||||||||||||| || |||||||| || || || ||||| ||| |||   |   |   | |||| |  | |    |  || | || || ||  | |  | ||| ||| |     |   || | | || | ||  |     |  
GTTGTACAGGCCTCCTCGTTGCTCCCATTGCTCTATCTGCAACAACTGCGTGGAGCGTTTTGACCATCACTGCCCATGGGTTGGACAATGCATAGGGCTTgtaagtttattaactaagcacttgtgactcagaa-agcctgtattgctgttgatat--acaatatttcgccaacactttatgttaaatctcacagccccctgt

upper sequence: GLYMA16G05670.2 (Glycine max), 5'ss of exon 3
lower sequence: AT5G41060.1 (Arabidopsis thaliana), 5'ss of exon 3
GCTCTACAGGCCTCCTCGATGCTCGCACTGCTCAATCTGTAATAACTGTGTGGAACGGTTTGACCATCACTGTCCTTGGGTTGGGCAGTGTATTGGGCTGgtatgttggatcttttgtctcttgagtgttattttattctttttttctttttgtgtgaagaatgttttgggggaagagtagcttaaccccattgttaagt
|||||| || || ||||| ||||| || || || || || || |||||||| ||| |||||||||||||||||||||||||||| || |||||||  |  ||| |||      ||| ||  ||   |||   ||  ||  |    ||  | | | | |   || |  |       | | |  |  |              
GCTCTATAGACCGCCTCGCTGCTCACATTGTTCGATTTGCAACAACTGTGTAGAAAGGTTTGACCATCACTGTCCTTGGGTTGGTCAATGTATTGCTCAAgtaagtttctcggtttttcgttttcctgtccgttagtttctgacatcagtctatataattcatctcattctccttgggaatttgcag-------------

upper sequence: GLYMA16G05670.2 (Glycine max), 5'ss of exon 3
lower sequence: AT3G26935.1 (Arabidopsis thaliana), 5'ss of exon 3
GCTCTACAGGCCTCCTCGATGCTCGCACTGCTCAATCTGTAATAACTGTGTGGAACGGTTTGACCATCACTGTCCTTGGGTTGGGCAGTGTATTGGGCTGgtatgttggatcttttgtctcttgagtgttattttattctttttttctttttgtgtgaagaat-gttttgggggaagagtagcttaaccccattgttaagt---
|||||| ||||| ||||| |||||||| |||||||| || || ||||| || ||| |||||||||||||||| |||||||| || || ||||||||| ||||| ||   |              | ||  ||    |   |||   || |     | ||  || ||||       |   |  | ||  |  || |||       
GCTCTATAGGCCGCCTCGCTGCTCGCATTGCTCAATTTGCAACAACTGCGTAGAAAGGTTTGACCATCACTGCCCTTGGGTCGGCCAATGTATTGGGATGgtaagtcaaaatcc---------aactg--atcccgtc--tttaagctatccacataaaccatagtttcctaaatatcatctcatattctgatggttgttgcag

upper sequence: GLYMA16G05670.2 (Glycine max), 5'ss of exon 3
lower sequence: Vv14s0068g01530.t01 (Vitis vinifera), 5'ss of exon 3
GCTCTACAGGCCTCCTCGATGCTCGCACTGCTCAATCTGTAATAACTGTGTGGAACGGTTTGACCATCACTGTCCTTGGGTTGGGCAGTGTATTGGGCTGgtatg---ttggatcttttgtctcttgagtgttattttattctttttttctttttgtgtgaagaatgttttgggggaagagtagcttaaccccattgttaagt
||| || || |||||||| ||||| ||||| || || ||||||||||| || ||||| ||||| || ||||| ||||||||||||||||||||||| |||||| |   |    | ||||    |||  |   ||||  ||   |    | | |       |  ||  |||      ||    | |   |  |    | |  ||
GCTTTATAGACCTCCTCGCTGCTCACACTGTTCCATATGTAATAACTGCGTCGAACGATTTGATCACCACTGCCCTTGGGTTGGGCAGTGTATTGGACTGgtaagagataaattattttagaccttatgacatattggatgtatagcctatatccaaagaagtaacattt---acaaaactcaacaccattcatggggtgggt

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|298192663|gb|HO033097.1|HO033097
EST:     GTCCTTGGGTTGGGCAGTGTATTGGGCTG                         CGTAATTATCGGTTCTTCTTCATGTTTGTCTTCTCAACTACGCTACTGTGC
genomic: GTCCTTGGGTTGGGCAGTGTATTGGGCTGgtatgttgga ... ttttatgcagCGTAATTATCGGTTCTTCTTCATGTTTGTCTTCTCAACTACGCTACTGTGT