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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTGGGCAATCAATTTGATGGCAGACGTTGTTGAACATGAACAGTTCAACAAAATGAATGCTCGCAATATTGCCATGGTTTTTGCGCCCAACATGACACAGgttagccaacattataagcaaataaagatgtattcttctgttgtttattgttggtttctctcaaacagtttaattaggctcattatttagttgaacttcc...

Basic information

species Glycine max
transcript GLYMA03G42090.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA03G42090.1 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os02g45600.1 (Oryza sativa), 5'ss of exon 4
CTGGGCAATCAATTTGATGGCAGACGTTGTTGAACATGAACAGTTCAACAAAATGAATGCTCGCAATATTGCCATGGTTTTTGCGCCCAACATGACACAGgttag-ccaacattataagcaaataaagatgtattcttctgttgtttattg---ttggtttctctcaaacagtttaattaggctcattatttagttgaacttcc
 ||||| |||||| |||||||||| ||||| ||||||||| | | ||| || ||||| |||||||| ||||| ||||||||||| || |||||||| |||||||  |  | | | ||      |  |  | | || |  || | | ||  |   ||| | | || || ||   | |  ||  |  |  || |  || |      
TTGGGCCATCAATCTGATGGCAGATGTTGTGGAACATGAAAACTACAATAAGATGAACGCTCGCAACATTGCTATGGTTTTTGCACCAAACATGACTCAGgttattctcaaaatctatttggctttatttattttttcttgctatctacagaatttgctatttcacagactaatcatgtaa-cataccatctcttttatag---

upper sequence: GLYMA03G42090.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G114192_T01 (Zea mays), 5'ss of exon 4
CTGGGCAATCAATTTGATGGCAGACGTTGTTGAACATGAACAGTTCAACAAAATGAATGCTCGCAATATTGCCATGGTTTTTGCGCCCAACATGACACAGgttagccaacattataagcaaataaagatgtattcttctgttgtttattgttggtttctctcaaacagtttaattaggctcattatttagttgaacttcc--
||||||||| ||| ||||||| || ||||| || || ||| | | |||||| ||||| || || || || || ||||||||||||||||| ||||| ||||||| |  |||      ||   | |  |||| |||     || |  |  |||  | |    |  |||  |    ||  |    |   |   |   |||||  
CTGGGCAATTAATCTGATGGCCGATGTTGTAGAGCAAGAAAACTACAACAAGATGAACGCCCGGAACATCGCGATGGTTTTTGCGCCCAATATGACTCAGgttaactgacac-----gcgtcttactatgtcttcag--attatacaaggttcatattatacctacacatacgctaatcctggtgcatttct---cttccag

upper sequence: GLYMA03G42090.1 (Glycine max), 5'ss of exon 4
lower sequence: AT2G46710.1 (Arabidopsis thaliana), 5'ss of exon 4
CTGGGCAATCAATTTGATGGCAGACGTTGTTGAACATGAACAGTTCAACAAAATGAATGCTCGCAATATTGCCATGGTTTTTGCGCCCAACATGACACAGgttagcca-------acattataagcaaataaagatgt--attcttctgttgtttattgttggtttctctcaaacagtttaattaggctcattatttagttgaacttcc
 ||||| |||  | | ||||| || || || || ||||||||||| ||||||||||||||||||||| | || ||||| ||||| || || ||||| || || ||  |         ||| |     ||| ||   ||  ||||||  ||| | || | |||  |    | |||  ||||   |    |                    
TTGGGCCATCGGTCTAATGGCGGATGTGGTGGAGCATGAACAGTTTAACAAAATGAATGCTCGCAATGTAGCTATGGTCTTTGCTCCAAATATGACTCAAgtcagtaataaaattgaattttcttttaatgaaacagttgattctttagttatatagttttgaatctcatgaaaatgttttgatgttgtag------------------

upper sequence: GLYMA03G42090.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv15s0048g02830.t01 (Vitis vinifera), 5'ss of exon 5
CTGGGCAATCAATTTGATGGCAGACGTTGTTGAACATGAACAGTTCAACAAAATGAATGCTCGCAATATTGCCATGGTTTTTGCGCCCAACATGACACAGgttagccaacat-tataagcaaataaagatgtattcttctgttgtttattgttggtttctctcaaacagt-ttaattaggctcattat-ttagttgaacttcc
|||| | |||||||||||| |||| || ||  | ||||||||   |||||| |||||||| ||||| ||||| ||||||||||| || |||||||| ||||||    ||||| | |       |     ||| ||    |  || |   | | || |     ||    || |  | |  |||        ||| |||  |   
CTGGACCATCAATTTGATGACAGATGTAGTGCAGCATGAACATCACAACAAGATGAATGCACGCAACATTGCAATGGTTTTTGCACCTAACATGACTCAGgttgcttaacatatcttgttctgtcgttttgttttaaggttctgctacatatggggtatctacagttggtatccaatgtgctagcctcactagctgactt---

upper sequence: GLYMA03G42090.1 (Glycine max), 5'ss of exon 4
lower sequence: PP1S13_243V6.1 (Physcomitrella patens), 5'ss of exon 4
CTGGGCAATCAATTTGATGGCAGACGTTGTTGAACATGAACAGTTCAACAAAATGAATGCTCGCAATATTGCCATGGTTTTTGCGCCCAACATGACACAGgttagccaacat----------------tataagcaaataaagatgtattct--tctgttgtttattgttggtttc-tctcaaacagtttaattaggctcattatttagttgaacttcc----------
||||||  ||||||||||||| || || ||  || | |||    ||||||| ||||| |||||||||||||| ||||| ||||| || || ||||| ||||| || || | |                |    |||  | || |    ||    | | || || | | ||    || | |   |  | | | | | ||  |  |  |  ||  || ||           
CTGGGCTGTCAATTTGATGGCTGATGTAGTCCAAGACGAAGTAGTCAACAAGATGAACGCTCGCAATATTGCAATGGTCTTTGCTCCTAATATGACTCAGgtaagtcatcttcgacctcccccttggatgctggcacttgaataccatttacgatttttttttcactcttcacctcattttggaacgctaactgaagcctaacacctgtttcgacctctatatctgcag

upper sequence: GLYMA03G42090.1 (Glycine max), 5'ss of exon 4
lower sequence: PP1S1_829V6.2 (Physcomitrella patens), 5'ss of exon 5
CTGGGCAATCAATTTGATGGCAGACGTTGTTGAACATGAACAGTTCAACAAAATGAATGCTCGCAATATTGCCATGGTTTTTGCGCCCAACATGACACAGgttagc--caacattataagcaaataaagatgta----ttcttctgttgtttattgttggtttctctcaaacagtttaattaggctcattattt----agttgaacttcc--------------------------------------------------------------
|||||| || || |||||||| || || || || |  ||    |||||||| |||||||||||||||||||| ||||| || || || || |||||||||||  |   ||    |  |      |  |  ||||     | || | | |   || ||    || | ||| |  ||      ||  |  ||||      || ||   ||||                                                              
CTGGGCCATTAACTTGATGGCCGATGTCGTGGAGCTGGAGTCTTTCAACAAGATGAATGCTCGCAATATTGCAATGGTATTCGCTCCTAATATGACACAGgtatggagcacttctgcagtggtctctatctgtagaagctgttgtatggcgaatggtcctcttttttcacatggtaactcaagattgcttatcctaaaaggtggttttccgttagcatgttatgtgtcaatgaaggttatccctttactgattcatatttactgccctgcag

upper sequence: GLYMA03G42090.1 (Glycine max), 5'ss of exon 4
lower sequence: PP1S107_15V6.1 (Physcomitrella patens), 5'ss of exon 5
CTGGGCAATCAATTTGATGGCAGACGTTGTTGAACATGAACAGTTCAACAAAATGAATGCTCGCAATATTGCCATGGTTTTTGCGCCCAACATGACACAGgt-tagccaacattataagcaaa----------taaagatgtatt----cttctgttgtttattgttggtttctctcaaacagtttaattaggctcattatttagttgaacttcc-------------------------------------------------------------------------------
|||||| |||||  | ||||| || || || || |  ||    | |||||| |||||||||||||| ||||| ||||||||||| || |||||||||||||| |||   || |  |  |              | ||  |   ||    ||     ||| ||  || | | |||| |      | | || |   |      ||| || | | ||                                                                                
CTGGGCCATCAACCTCATGGCGGATGTGGTGGAGCTGGAGTCTTACAACAAGATGAATGCTCGCAACATTGCTATGGTTTTTGCTCCGAACATGACACAGgtatagagcacctcttcggtggtctctttcttttgaaactagtttagagctaaaactgtgtagcgt-gttgtctcccgtgttttctcatgatctttgcacattatttcagcctcgaaggtcgtttgttgttagttggtgttcgatctgttgacgaaggtcatctctttgataatttgagtttcttgccctgcag

upper sequence: GLYMA03G42090.1 (Glycine max), 5'ss of exon 4
lower sequence: PP1S159_36V6.1 (Physcomitrella patens), 5'ss of exon 5
CTGGGCAATCAATTTGATGGCAGACGTTGTTGAACATGAACAGTTCAACAAAATGAATGCTCGCAATATTGCCATGGTTTTTGCGCCCAACATGACACAGgttagccaa--cattataagcaaataaagatgtattcttctgttg--tttattgttggtttctctcaaa--cagtttaat--taggctcattatttagttgaacttcc------------------------------------------------------------------------------
||||||  ||||  ||||||| || ||||| || || ||     |||||||||||||||| || |||||||| ||||| ||||| || |||||||| |||||  |  |   |  |  ||              |  ||| ||     ||| ||    |  |     | |  | ||    |  |  ||  | | |     |  | |||                                                                               
CTGGGCTGTCAACCTGATGGCCGATGTTGTCGAGCACGAGGTTCTCAACAAAATGAATGCACGAAATATTGCAATGGTGTTTGCACCTAACATGACGCAGgtatgtgatgtcgctgcaattgtgcgcctccccaaacttgtgacacttttcttaccagacttgtagagattcggtcctgtagttagcagactctccgactagatttctacgtgatctaaggaagtatttgtgttaagcttgttatatgaagtgaataacatattaactatgattcattacttgcag

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|57575023|gb|CX547998.1|CX547998
EST:     AAATGAATGCTCGCAATATTGCCATGGTTTTTGCGCCCAACATGACACAG                         ATGGCGGACCCTTTGACTGCATTGATTCATGCAGTGCAAGTGATGAACTTT
genomic: AAATGAATGCTCGCAATATTGCCATGGTTTTTGCGCCCAACATGACACAGgttagccaac ... tgctttgcagATGGCGGACCCTTTGACTGCATTGATTCATGCAGTGCAAGTGATGAACTTT
EST: gi|57575266|gb|CX548241.1|CX548241
EST:     AAATGAATGCTCGCAATATTGCCATGGTTTTTGCGCCCAACATGACACAG                         ATGGCGGACCCTTTGACTGCATTGATTCATGCAGTGCAAGTGATGAACTTT
genomic: AAATGAATGCTCGCAATATTGCCATGGTTTTTGCGCCCAACATGACACAGgttagccaac ... tgctttgcagATGGCGGACCCTTTGACTGCATTGATTCATGCAGTGCAAGTGATGAACTTT