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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTTCGTCGTTTGGCGTCCTCCTGAATTCGCCAGAGACCTTCTTCCTAACTACTTCAAACACAACAACTTCTCCAGCTTCGTTCGCCAACTCAACACCTATgtattatatttacttacacactgatacactatctctagttcttcaattattgttttcttttctttttatattctgacagttttaaatggatgaactag

Basic information

species Glycine max
transcript GLYMA04G04200.1
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA04G04200.1 (Glycine max), 5'ss of exon 1
lower sequence: LOC_Os08g36700.1 (Oryza sativa), 5'ss of exon 1
CTTCGTCGTTTGGCGTCCTCCTGAATTCGCCAGAGACCTTCTTCCTAACTACTTCAAACACAACAACTTCTCCAGCTTCGTTCGCCAACTCAACACCTATgtattatatttacttacacactgatacactatctctagttcttcaattattgttttcttttctttttat-attctgacagttttaaatggatgaactag
||||||||| ||||| || || || |||||||| ||| | || || ||||||||||| |||| ||||||||||  |||||| ||||| |||||||| ||||||    ||| || | |    | ||    | || | | |  |  ||   |        | |    | |  |   |||  || |     |          
CTTCGTCGTGTGGCGGCCACCGGAGTTCGCCAGGGACATCCTCCCCAACTACTTCAAGCACAGCAACTTCTCCTCCTTCGTCCGCCAGCTCAACACATATgtacgccatt-acgttcgtgatcatggcgtctcgccattgatggaagcttgaagggtgtatggaatgacgaccgtgatggtgtgtcgcgtgcag-----

upper sequence: GLYMA04G04200.1 (Glycine max), 5'ss of exon 1
lower sequence: LOC_Os09g28200.1 (Oryza sativa), 5'ss of exon 1
CTTCGTCGTTTGGCGTCCTCCTGAATTCGCCAGAGACCTTCTTCCTAACTACTTCAAACACAACAACTTCTCCAGCTTCGTTCGCCAACTCAACACCTATgtattatatttacttacacactgatacactatctctagttct-tcaattattgttttcttttctttttatattctgacagtttta-aatggatgaactag
||||||||| ||||| || || || |||||  | ||| | || || ||||||||||| ||||||||||||||    ||||| ||||| ||||||||||| |||    |    |   ||  | |   |||  ||| ||||||| |    |  ||  || |  |   | ||  |   |||    ||  |||| |        
CTTCGTCGTGTGGCGGCCGCCGGAGTTCGCGCGCGACATCCTCCCCAACTACTTCAAGCACAACAACTTCTCGTCGTTCGTCCGCCAGCTCAACACCTACgtaagcaaagcgc---catgccgc--caccttctgtagttctgttctctcgtgcgttttgatgcgtgtaagtaacgacgtcgttgcaatgcag-------

upper sequence: GLYMA04G04200.1 (Glycine max), 5'ss of exon 1
lower sequence: GRMZM2G088242_T01 (Zea mays), 5'ss of exon 1
CTTCGTCGTTTGGCGTCCTCCTGAATTCGCCAGAGACCTTCTTCCTAACTACTTCAAACACAACAACTTCTCCAGCTTCGTTCGCCAACTCAACACCTATgta--ttatatt--tacttacacactgatacactatctctag-----ttcttcaattattgttttcttttctttttatattctgacagtttta-aatggatgaactag---
|||||| || ||||| || || || |||||  | ||| | || || ||||||||||| |||||||||||||||  ||||||||| || || |||||||| ||   |    ||   ||||   |   | |   |||   || |       |    |     |     |  |         |   | || |  |  || ||   |    |   
CTTCGTGGTCTGGCGCCCGCCGGAGTTCGCGCGCGACATCCTCCCCAACTACTTCAAGCACAACAACTTCTCCTCCTTCGTTCGACAGCTAAACACCTACgtgagtcgccttcgcacttggccttggtttagctaagccttggaggccgcgcggagcgcggacggatggtgaccgccggtgacggcaatgctgcaacgggcaataatgcag

upper sequence: GLYMA04G04200.1 (Glycine max), 5'ss of exon 1
lower sequence: AT1G46264.1 (Arabidopsis thaliana), 5'ss of exon 1
CTTCGTCGTTTGGCGTCCTCCTGAATTCGCCAGAGACCTTCTTCCTAACTACTTCAAACACAACAACTTCTCCAGCTTCGTTCGCCAACTCAACACCTATgtattatatttacttacacactgatacactatctctagttcttcaattattgttttcttttctttttatattctgacagttttaaatggatgaactag------
 || |||||||||||||| || || || ||  | || ||||||||||| ||||| ||||| ||||||||||| ||||||||||| || ||||| || |||||   || |  | | |  | ||  | |  | ||||||    | | ||| || ||  |    |  |||   |  |     ||||     | |  ||         
TTTTGTCGTTTGGCGTCCACCGGAGTTTGCTCGTGATCTTCTTCCTAATTACTTTAAACATAACAACTTCTCTAGCTTCGTTCGTCAGCTCAATACTTATgt---atgtagaataaagctctc-tcctttctctctaaagttacgatttttattaccaaaacgatttgggtatttgagattttggtctgttatacgttttttgt

upper sequence: GLYMA04G04200.1 (Glycine max), 5'ss of exon 1
lower sequence: Vv18s0001g10380.t01 (Vitis vinifera), 5'ss of exon 1
CTTCGTCGTTTGGCGTCCTCCTGAATTCGCCAGAGACCTTCTTCCTAACTACTTCAAACACAACAACTTCTCCAGCTTCGTTCGCCAACTCAACACCTATgtattatatttacttacacactgatacactatctctagttc--ttcaattattgttttcttttctttttatat-tctgacag----ttttaaatggatgaactag--------------------------------------
|||||| || |||||||||||||| |||||  | || || ||||| || ||||||||||||||||||||||| ||||||||  | || ||||||||||||||||    | |   |   | |  |    |  |||  |  ||  |||      |||      || | | ||||| | ||| |     || | | ||  |  |||                                        
CTTCGTGGTGTGGCGTCCTCCTGAGTTCGCTCGCGATCTCCTTCCCAATTACTTCAAACACAACAACTTCTCAAGCTTCGTCAGACAGCTCAACACCTATgtatgccttctctctcttcccccacttcccttcttcaaatcgtttctggagatgtaactggttatatatatatatatgaaacaagcttcttattgtttttactgatttagattttgttttgcttgcttgcttccggaaactag

upper sequence: GLYMA04G04200.1 (Glycine max), 5'ss of exon 1
lower sequence: PP1S85_27V6.1 (Physcomitrella patens), 5'ss of exon 1
CTTCGTCGTTTGGCGTCCTCCTGAATTCGCCAGAGACCTTCTTCCTAACTACTTCAAACACAACAACTTCTCCAGCTTCGTTCGCCAACTCAACACCTATgtattatatttacttacacactgatacactatctctagttcttcaattat-tgttttcttttctttttatattctgacagttttaaatggatgaactag--
|||||||||||||||||||||||| || || ||||| ||  | || ||||||||||| |||||||| || ||||||||||| || ||||| ||||||||||||   |    | ||  ||||            | |  |    |   | | ||||  |||  |    | ||   ||| |      |   ||| ||  ||  
CTTCGTCGTTTGGCGTCCTCCTGAGTTTGCGAGAGATCTCTTGCCGAACTACTTCAAGCACAACAATTTTTCCAGCTTCGTGCGGCAACTAAACACCTATgtaagctccgcatttctacacaaccttgactattgtgatggaacgcctctctgttaacttaccagcatgtaaa-tgagacaaccgatcagataaaggagga

upper sequence: GLYMA04G04200.1 (Glycine max), 5'ss of exon 1
lower sequence: PP1S12_41V6.1 (Physcomitrella patens), 5'ss of exon 1
CTTCGTCGTTTGGCGTCCTCCTGAATTCGCCAGAGACCTTCTTCCTAACTACTTCAAACACAACAACTTCTCCAGCTTCGTTCGCCAACTCAACACCTATgta----ttatatttacttacacactgatacactatctctagttcttcaattattgttttcttttctttttatat-tctgacagttttaaatggatgaactag
 |||||||| ||||||||||||||||||||  |||| ||| | || || |||||||| ||||| |||||||| |||||||| || || || || |||||||||        |||   || | ||    |      |   |     || | | ||||   ||        | |||  || |     |  ||  | |||||    
ATTCGTCGTCTGGCGTCCTCCTGAATTCGCTCGAGATCTTTTGCCCAAATACTTCAAGCACAATAACTTCTCTAGCTTCGTACGACAGCTGAATACCTATgtaagctccgcattccgtttcgcaactgtgttgattgcgtgaaatttgattaattgccgtccaaatgagtaatacatcaggttagtcaaagagaatgaat---

upper sequence: GLYMA04G04200.1 (Glycine max), 5'ss of exon 1
lower sequence: PP1S19_153V6.1 (Physcomitrella patens), 5'ss of exon 1
CTTCGTCGTTTGGCGTCCTCCTGAATTCGCCAGAGACCTTCTTCCTAACTACTTCAAACACAACAACTTCTCCAGCTTCGTTCGCCAACTCAACACCTATgtattatatttacttacacactgatacactatctctagttcttcaattattgttttcttttctttttatattctgacagttttaaatg-gatgaactag------
||||||||||||||| |||||||| || || ||||| ||  | || ||||| ||||||||||||||||| |||||||| || || ||||| || || ||||||   |    | ||  ||||  |||   |     || |||   |   |  ||| ||   |   |   ||   |  ||||   || || |||  ||| |      
CTTCGTCGTTTGGCGCCCTCCTGAGTTTGCGAGAGATCTCTTACCCAACTATTTCAAACACAACAACTTTTCCAGCTTTGTGCGACAACTAAATACTTATgtaagctccgcattt-tacacaaatatgatga---taattcag-atggagcgttctcacatagctaagtagcgtttcagtgagaagtgcgattcactcgaggaag

upper sequence: GLYMA04G04200.1 (Glycine max), 5'ss of exon 1
lower sequence: PP1S207_20V6.1 (Physcomitrella patens), 5'ss of exon 1
CTTCGTCGTTTGGCGTCCTCCTGAATTCGCCAGAGACCTTCTTCCTAACTACTTCAAACACAACAACTTCTCCAGCTTCGTTCGCCAACTCAACACCTATgtat-tatatttacttacacactgatacactatctctagttcttcaattattgttttcttttctttttatattct-gacagttttaaatggatgaactag
|||||| || ||||| || || || || ||  | ||| | |||||||| |||||||| ||||| || ||||||||||| ||| | || ||||||||||| |||  |  ||  |||||      | |  |  || ||  | |  || |   |||       |    |||  |  || | |      | |     |   | |
CTTCGTGGTCTGGCGACCGCCAGAGTTTGCACGGGACTTGCTTCCTAATTACTTCAAGCACAATAATTTCTCCAGCTTTGTTAGGCAGCTCAACACCTACgtaagtcgatccacttaagggacgttgtaaaatatcaggatgatcgagatttgagaaaggtgaaatttgaaaactaggctcgagaagacaccagggttgg

upper sequence: GLYMA04G04200.1 (Glycine max), 5'ss of exon 1
lower sequence: EFJ15796 (Selaginella moellendorffii), 5'ss of exon 1
CTTCGTCGTTTGGCGTCCTCCTGAATTCGCCAGAGACCTTCTTCCTAACTACTTCAAACACAACAACTTCTCCAGCTTCGTTCGCCAACTCAACACCTATgtat--------tatatttacttac-acactgatacactatctctagttcttcaattattgttttcttttctttttatattctga--cagttttaaatgg-atgaactag--------------------------
 ||| |||| ||||| || || ||||||||||  ||  |  | || || |||||||| ||||| ||||||||||| ||||| || || ||||||||||| ||          ||  ||| ||| | ||||     ||   |   | |   |||| |   |   |||||  |||    || || |   ||| | | ||||   |   | |                           
GTTCATCGTCTGGCGACCCCCGGAATTCGCCAAGGATATCTTGCCGAATTACTTCAAGCACAATAACTTCTCCAGTTTCGTCCGGCAGCTCAACACCTACgtgagtctcgcatacgttttctttccacacctcctcatagttctttggagttcagtcccttagttcttcacttgcagtactcagcttcagctgtcaatgatgttgcccactgaacttcgttcttgtcgactcgcag

upper sequence: GLYMA04G04200.1 (Glycine max), 5'ss of exon 1
lower sequence: EFJ31857 (Selaginella moellendorffii), 5'ss of exon 1
CTTCGTCGTTTGGCGTCCTCCTGAATTCGCCAGAGACCTTCTTCCTAACTACTTCAAACACAACAACTTCTCCAGCTTCGTTCGCCAACTCAACACCTATgta--ttatattt-acttacacactgatacactatctctagttcttcaattattgttttcttttctttttatattctgacagttttaaatggatgaactag-------------------------------------------
 |||||||| |||   || || || |||||||  ||  | || || | ||||||||| |||||||||||||| |||||||| || || |||||||| |||||   ||  |||  |    |    |  | |  |  |||   ||       |||  || |||  |  ||  |      |   | ||  | |   || |  ||                                           
ATTCGTCGTGTGGAAGCCGCCCGAGTTCGCCACCGATTTGCTCCCCAGCTACTTCAAGCACAACAACTTCTCGAGCTTCGTCCGGCAGCTCAACACATATgtgagttccattccaagctcttgtttgttcgttcgctcgctttgccttcctatctttctctcgttcttccaccgagcgtttgcttcga-tccttgcaagagtctctctggcaactcactcacattgcaacaatgctgtgtgcag

upper sequence: GLYMA04G04200.1 (Glycine max), 5'ss of exon 1
lower sequence: EFJ28850 (Selaginella moellendorffii), 5'ss of exon 1
CTTCGTCGTTTGGCGTCCTCCTGAATTCGCCAGAGACCTTCTTCCTAACTACTTCAAACACAACAACTTCTCCAGCTTCGTTCGCCAACTCAACACCTATgtattatatttacttacacactgatacactatctctagttcttcaattattgttttcttttctttttatattctgacagttttaaatggatgaactag
||||||||| ||| | || || || |||||| | ||| | || || ||||||||||| |||||||| |||||||||||||| || || ||||||||||||||      | |    |  |||    |  || || || ||||| | ||  |  |  |||| || |      ||||  |||                   
CTTCGTCGTGTGGAGGCCGCCAGAGTTCGCCCGCGACTTGCTCCCAAACTACTTCAAGCACAACAATTTCTCCAGCTTCGTGCGGCAGCTCAACACCTATgt---gagtctctcgaatcaccttgaagctctcacttgttctccgatc-tgatcatcttatcgt--cgcgttcttgcag-------------------

upper sequence: GLYMA04G04200.1 (Glycine max), 5'ss of exon 1
lower sequence: EFJ38003 (Selaginella moellendorffii), 5'ss of exon 1
CTTCGTCGTTTGGCGTCCTCCTGAATTCGCCAGAGACCTTCTTCCTAACTACTTCAAACACAACAACTTCTCCAGCTTCGTTCGCCAACTCAACACCTATgta--ttatattt-acttacacactgatacactatctctagttcttcaattattgttttcttttctttttatattctgacagttttaaatggatgaactag-------------------------------------------
 |||||||| |||   || || || |||||||  ||  | || || | ||||||||| |||||||||||||| |||||||| || || |||||||| |||||   ||  |||  |    |    |  | |  |  |||   ||       |||  || |||  |  ||  |      |      ||  ||   || |  ||                                           
ATTCGTCGTGTGGAAGCCGCCCGAGTTCGCCACCGATTTGCTCCCCAGCTACTTCAAGCACAACAACTTCTCGAGCTTCGTCCGGCAGCTCAACACATATgtgagttccattccaagctcttgtttgttcgttcgctcgctttgccttcctatctttctctcgttcttccaccgagcgttttgctttgatccttgcaagagtctctctggcaactcactcacattgcaacaatgctgtgtgcag

upper sequence: GLYMA04G04200.1 (Glycine max), 5'ss of exon 1
lower sequence: EFJ17520 (Selaginella moellendorffii), 5'ss of exon 1
CTTCGTCGTTTGGCGTCCTCCTGAATTCGCCAGAGACCTTCTTCCTAACTACTTCAAACACAACAACTTCTCCAGCTTCGTTCGCCAACTCAACACCTATgtattatatttacttacacactgatacactatctctagttcttcaattattgttttcttttctttttatattctgacagttttaaatggatgaactag
||||||||| ||| | || || || |||||| | ||| | || || ||||||||||| |||||||| |||||||||||||| || || ||||||||||||||   |  |      |  |||    || || || || |||||   ||  |  |  |||| || |  |   ||||  |||                   
CTTCGTCGTGTGGAGGCCGCCAGAGTTCGCCCGCGACTTGCTCCCAAACTACTTCAAGCACAACAATTTCTCCAGCTTCGTGCGGCAGCTCAACACCTATgt---aagtccctcgaatcaccttgacgctctcacttgttctctgatc-tgatcatcttatcat--tgctttcttgcag-------------------

upper sequence: GLYMA04G04200.1 (Glycine max), 5'ss of exon 1
lower sequence: EFJ32930 (Selaginella moellendorffii), 5'ss of exon 1
CTTCGTCGTTTGGCGTCCTCCTGAATTCGCCAGAGACCTTCTTCCTAACTACTTCAAACACAACAACTTCTCCAGCTTCGTTCGCCAACTCAACACCTATgta----ttatatttacttacacactgatacactatctctagttcttcaattattgttttcttttctttttatattctgacagtt--ttaaatggatgaactag----------------------------------------------------
 |||||||| ||||| || || ||||||||||  ||  |  | || || |||||||| ||||| ||||||||||| ||||| || || ||||||||||| ||     |   ||    || |   |  | ||    ||  ||||||||      |   |  |||   | ||       || |  |   ||  |    | | ||                                                      
GTTCGTCGTCTGGCGACCCCCGGAATTCGCCAAGGATATCTTGCCGAATTACTTCAAGCACAATAACTTCTCCAGTTTCGTCCGGCAGCTCAACACCTACgtgagtctcccatacgttttctttcc-acacctcctccatagttctttggagttcagtcccttagttcttcgccagttgtcgatcacttgcagtactcagcttcagcattttgtcaatgatgttgcgcactgaacttcgttcttgtcgactcgcag

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|14125333|gb|BG789771.1|BG789771
EST:     ACTTCAAACACAACAACTTCTCCAGCTTCGTTCGCCAACTCAACACCTAT                         GGTTTTAGAAAGATTGTGCCAGACCGATGGGAGTTCGCGAACGAATTCTTC
genomic: ACTTCAAACACAACAACTTCTCCAGCTTCGTTCGCCAACTCAACACCTATgtattatatt ... gatgaactagGGTTTTAGAAAGATTGTGCCAGACCGATGGGAGTTCGCGAACGAATTCTTC
EST: gi|193430601|gb|FK394149.1|FK394149
EST:     ACTTCAAACACAACAACTTCTCCAGCTTCGTTCGCCAACTCAACACCTAT                         GGTTTTTAGAAAGATTGTGCCAGACCGATGGGAGTTCGCGAACGAATTCTT
genomic: ACTTCAAACACAACAACTTCTCCAGCTTCGTTCGCCAACTCAACACCTATgtattatatt ... gatgaactagGGTTTT-AGAAAGATTGTGCCAGACCGATGGGAGTTCGCGAACGAATTCTT