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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGTCCTATCTGAGTGGCATTCTCACTGTATTCTTTTGTGGGATTGTCATGTCTCATTATACCTGGCATAATGTGACTGAGAGTTCAAGAATCACTACCAAgtatgtcttctaaatagatttcctcaagatatacgcacactgtccaagtctatgcatacctaaacatatttttcatccaactcttgcag

Basic information

species Glycine max
transcript GLYMA20G37370.1
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G37370.1 (Glycine max), 5'ss of exon 10
lower sequence: LOC_Os05g05590.1 (Oryza sativa), 5'ss of exon 10
TGTCCTATCTGAGTGGCATTCTCACTGTATTCTTTTGTGGGATTGTCATGTCTCATTATACCTGGCATAATGTGACTGAGAGTTCAAGAATCACTACCAAgta-----tgtcttctaaatagatttcctcaagatatacgcacactgtccaag---------tctatgcata---cctaaacatatttttcatccaactcttgcag
||    |||||||||||||||||||||| ||||| | ||| || || ||||| ||||| || |||||||||||||| || || || || || |||||||||||     |||||  |||  || ||| ||    |     |     | |   ||         | |||| |||   | |    ||||| ||||| ||  | || |||
TGCTAGATCTGAGTGGCATTCTCACTGTGTTCTTCTCTGGAATAGTAATGTCACATTACACTTGGCATAATGTGACAGAAAGCTCTAGGATTACTACCAAgtatgtactgtctgataatcagttttactggcaacccttgtggtttcttttagatgaaaatatttatgtatatggcttcctgatattcttcattca--ttttacag

upper sequence: GLYMA20G37370.1 (Glycine max), 5'ss of exon 10
lower sequence: LOC_Os07g47100.2 (Oryza sativa), 5'ss of exon 9
TGTCCTATCTGAGTGGCATTCTCACTGTATTCTTTTGTGGGATTGTCATGTCTCATTATACCTGGCATAATGTGACTGAGAGTTCAAGAATCACTACCAAgtatgtc----ttctaaatagatttcctcaagatatacgcacactgtccaagtctatgcatacctaaacatatttt------tcatccaactcttgcag-----
||    || |||| ||||||||||| |||||||| ||||| ||||| ||||| ||||| || |||||||| || || |||||||||||| | || || |||||  |     |||| | |  || | ||   | |  | |   |   | ||  ||   | | | ||||||| |  ||      |  |      ||| ||      
TGCTAGATTTGAGCGGCATTCTCACCGTATTCTTCTGTGGTATTGTAATGTCACATTACACTTGGCATAACGTCACAGAGAGTTCAAGAGTTACAACAAAgtaaattataattctcattccatattctactgtttaatgattagc-ttcagttcgtagaaaaactaaacaaaacttactggtttgttttgtcctttcacctcag

upper sequence: GLYMA20G37370.1 (Glycine max), 5'ss of exon 10
lower sequence: LOC_Os11g42790.1 (Oryza sativa), 5'ss of exon 8
TGTCCTATCTGAGTGGCATTCTCACTGTATTCTTTTGTGGGATTGTCATGTCTCATTATACCTGGCATAATGTGACTGAGAGTTCAAGAATCACTACCAAgtatgtcttctaaatagatttcctcaagatatacgc-acactgtccaagtctatgcatacctaaacatatttttcatccaactcttgcag------------------------------------------
||    || ||||||| ||||| || || ||||| ||||| ||||| ||||| || ||||||||||||||||| || |||||||| ||  |||| |||||||| || |  | | | | ||   |||  | |      |  |  |     | | |  | || | |  || |     ||  |  || || |                                           
TGCTTGATTTGAGTGGTATTCTTACGGTGTTCTTCTGTGGTATTGTAATGTCGCACTATACCTGGCATAATGTAACAGAGAGTTCCAGGGTCACAACCAAgtaagtatcttta-tggtttgtttcagcaaacttattattccattttcattttttta-acttgatgatttcaaatatgtatttcctgaaattgtgtatcacactgatgcttctctaattgtatactctatag

upper sequence: GLYMA20G37370.1 (Glycine max), 5'ss of exon 10
lower sequence: GRMZM2G027851_T03 (Zea mays), 5'ss of exon 7
TGTCCTATCTGAGTGGCATTCTCACTGTATTCTTTTGTGGGATTGTCATGTCTCATTATACCTGGCATAATGTGACTGAGAGTTCAAGAATCACTACCAAgta-tgtcttctaaatagatttcctcaagatatacgcacactgt-ccaagtctatgcatacctaaacatatttttcatccaactcttgcag--------
||    |||||||||||||||| || |||||||| || || || || ||||| ||||| |||||||| |||||||| ||||| |||||| |||| |||||||| |   | ||    |  ||| | | ||  ||        | | |  | |  | | || | | |    |||  |  |    || || ||         
TGCTAGATCTGAGTGGCATTCTTACCGTATTCTTCTGCGGCATCGTGATGTCGCATTACACCTGGCACAATGTGACAGAGAGCTCAAGAGTCACAACCAAgtaattattccttgtcattttttcgctagtaatgtttctgttctgcttaataaacgaatgc-tgactgaattccttttgggcctttttcattcacttag

upper sequence: GLYMA20G37370.1 (Glycine max), 5'ss of exon 10
lower sequence: GRMZM2G063492_T01 (Zea mays), 5'ss of exon 10
TGTCCTATCTGAGTGGCATTCTCACTGTATTCTTTTGTGGGATTGTCATGTCTCATTATACCTGGCATAATGTGACTGAGAGTTCAAGAATCACTACCAAgtatgtctt--ctaaat--agatttcct--caagatatacgcacactg--tccaagtctatgcatacctaa-acatatttttcatccaactcttgcag
|||   | |||||||| ||||| ||||| ||||| ||||| || || ||||| ||||| || |||||||||||||| || ||||| ||  | || ||||||||||||||  ||  ||  || ||| ||  ||| |  || |     |   ||  |   |||| ||||  |   |  |||||   |     | ||||||
TGTTGGACCTGAGTGGAATTCTTACTGTCTTCTTCTGTGGAATAGTAATGTCACATTACACTTGGCATAATGTGACAGAAAGTTCTAGGGTTACCACCAAgtatgtcttttctggattcagtttttctagcaaaaattatggttcttacttcttacattatgtatactaattgctgattttctctttccatgttgcag

upper sequence: GLYMA20G37370.1 (Glycine max), 5'ss of exon 10
lower sequence: GRMZM2G311165_T01 (Zea mays), 5'ss of exon 9
TGTCCTATCTGAGTGGCATTCTCACTGTATTCTTTTGTGGGATTGTCATGTCTCATTATACCTGGCATAATGTGACTGAGAGTTCAAGAATCACTACCAAgtatgtcttctaaatagatttcctcaagatatacgcacactgtcca--agtctatgc--atacctaaacatatttttcatccaactc-ttgcag
||  | || ||||||||||||||||||| || || ||||| || || ||||| || ||||| ||||| ||||| || || ||||| ||  |||| |||||||| ||    | | ||  ||   |   || ||  ||      ||    | ||| ||   || | ||  |  || |   ||   |    |  |||
TGCTCGATTTGAGTGGCATTCTCACTGTGTTTTTCTGTGGTATCGTAATGTCACACTATACTTGGCAAAATGTAACAGAAAGTTCGAGGGTCACAACCAAgtaagtagcttca-taccttctgtatggacatttgcttttgatcatgcattctttggtaatgcttatgctaatgtactattggatggatcacag

upper sequence: GLYMA20G37370.1 (Glycine max), 5'ss of exon 10
lower sequence: Vv14s0030g00710.t01 (Vitis vinifera), 5'ss of exon 9
TGTCCTATCTGAGTGGCATTCTCACTGTATTCTTTTGTGGGATTGTCATGTCTCATTATACCTGGCATAATGTGACTGAGAGTTCAAGAATCACTACCAAgtatgtcttct---------aaataga------tttcctcaagatatacgcacac-tgtccaagtctatg-catacctaaacatatttttcatccaactcttgcag---------------
| | |||| |||||||||||||||| ||||| || ||||||||||| ||||| ||||| || ||||| ||||| || |||||||||||| |||||||||||||||| || |         || | ||      |||  ||| ||| ||        | || ||   || | |||  ||     |||   |  |  || |  ||                  
TATTCTATTTGAGTGGCATTCTCACGGTATTTTTCTGTGGGATTGTAATGTCCCATTACACGTGGCACAATGTTACAGAGAGTTCAAGAGTCACTACCAAgtatgtattttcctgaaagcaattggaacattttttggtcaggatttatatttttatttcaaaaaataggtcattactggctgtatgcctgttttaatttctgtctataaaatttccacag

upper sequence: GLYMA20G37370.1 (Glycine max), 5'ss of exon 10
lower sequence: PP1S113_117V6.1 (Physcomitrella patens), 5'ss of exon 8
TGTCCTATCTGAGTGGCATTCTCACTGTATTCTTTTGTGGGATTGTCATGTCTCATTATACCTGGCATAATGTGACTGAGAGTTCAAGAATCACTACCAAgtatgtcttctaaatagatttcctcaagatatacgcacactgtccaagtctatgcatacctaaacatattt----ttcatcc---aactcttgcag---------------------------------------------------------------
| | |||  ||||||| || ||| | || ||||||||||| ||||| ||||||||||| || ||||||||||| || || | |||  ||| ||| |||| ||| ||    | |      ||      ||| | |  | |||  | ||      |||     ||| ||  ||     | || |   |  ||||| ||                                                               
TTTTCTACTTGAGTGGAATACTCTCAGTGTTCTTTTGTGGCATTGTAATGTCTCATTACACTTGGCATAATGTCACGGAAAATTCTCGAACCACAACCAGgtacgttccttcatgcctcttagcttcgatgttc-tatactagcgaacgaatggcaacatcaaatattcttgagactgatgcgtaatttcttggaggttggagttatgatactgatgcttgtcatcaacgtgacattaatgcactttggtgattcacag

upper sequence: GLYMA20G37370.1 (Glycine max), 5'ss of exon 10
lower sequence: PP1S169_48V6.1 (Physcomitrella patens), 5'ss of exon 9
TGTCCTATCTGAGTGGCATTCTCACTGTATTCTTTTGTGGGATTGTCATGTCTCATTATACCTGGCATAATGTGACTGAGAGTTCAAGAATCACTACCAAgtatgtcttctaaatagatttcctcaagatatacgcacactgtcca--agtctatgcatacctaaacatatttttcatccaactcttgcag-----------------------------------------------------------------------------
| | |||  ||||||| |||||| | || |||||||| || ||||| ||||||||||| || |||||||| || || |||| |||  ||||||| | |||||| || ||    |||   | |||||   | || |     ||   |  ||| | ||  ||  |  | ||||||||    ||  | | | |                                                                              
TTTTCTACTTGAGTGGAATTCTCTCAGTGTTCTTTTGCGGCATTGTAATGTCTCATTACACTTGGCATAACGTCACGGAGAATTCTCGAATCACAAGCAAgtacgtttt----ataatgtacctcagtttctatgggtgttgcaaattagtatttgtttatgtcga-atatttttggaacagatgtagaatttcctcggaactagacccattattcaatgctgatactaagcgtcaatgttatgttgatacgttttggttaattgcag

upper sequence: GLYMA20G37370.1 (Glycine max), 5'ss of exon 10
lower sequence: PP1S207_23V6.1 (Physcomitrella patens), 5'ss of exon 10
TGTCCTATCTGAGTGGCATTCTCACTGTATTCTTTTGTGGGATTGTCATGTCTCATTATACCTGGCATAATGTGACTGAGAGTTCAAGAATCACTACCAAgta--------tgtcttctaaatag--atttcct------caa-gatatacgcacactgtccaagtctatgcatacctaaacatatttttcatcc-aactcttgcag
| | |||  ||||||| ||||| ||||| ||||||||||| ||||| ||||| || ||||||||||||||||| ||||| || ||  |||| || |||| |||        | |||||| ||| |  || ||||      ||| |  | ||  |   |||  || | |||    |  ||   ||||  ||  ||  ||| |      
TTTTCTACTTGAGTGGGATTCTTACTGTCTTCTTTTGTGGCATTGTAATGTCCCACTATACCTGGCATAATGTTACTGAAAGCTCCCGAATAACCACCAGgtaaacaaccatctcttctgaatcggaatgtcctgtcattcaatggaacacctaagttgtttaaat-tatagtcatatattaatatcctttgtcttaacac------

upper sequence: GLYMA20G37370.1 (Glycine max), 5'ss of exon 10
lower sequence: PP1S31_203V6.1 (Physcomitrella patens), 5'ss of exon 10
TGTCCTATCTGAGTGGCATTCTCACTGTATTCTTTTGTGGGATTGTCATGTCTCATTATACCTGGCATAATGTGACTGAGAGTTCAAGAATCACTACCAAgtatg-------tcttctaaatag-atttcctcaagatatacgcacactgtccaagt-ctatgcatacc---taaacatatttttcatccaactcttgcag
| | ||| |||||||| ||||| || || ||||||||||| ||||| ||||| || || ||||||||||| || ||||| || ||| || | ||||||||||| |       ||||  |  | | || ||||    || ||  || | | |  |  |  |    |  ||   || |   |  |        | |||    |
TTTTCTACCTGAGTGGAATTCTTACCGTCTTCTTTTGTGGCATTGTAATGTCACACTACACCTGGCATAACGTCACTGAAAGCTCACGAGTAACTACCAAgtaggcatctcttctttcagttgggatgtccttttcatcta-acagaatttttatctgttgaataggccacgtacaagcagctcaagatttagtctatttg

upper sequence: GLYMA20G37370.1 (Glycine max), 5'ss of exon 10
lower sequence: EFJ05720 (Selaginella moellendorffii), 5'ss of exon 8
TGTCCTATCTGAGTGGCATTCTCACTGTATTCTTTTGTGGGATTGTCATGTCTCATTATACCTGGCATAATGTGACTGAGAGTTCAAGAATCACTACCAAgtatgtcttctaaatagatttcctcaagatatacgcacactgtccaagtctatgcatacctaaacatatttttcatccaactcttgcag
||| ||| |||||||| || ||||| || ||||||||||| ||||| ||||| |||||||| ||||| || || || ||||| ||||||||||| ||||||||      | ||   |  |  || | | | ||  |  | |     ||                                         
TGTTCTACCTGAGTGGGATCCTCACAGTCTTCTTTTGTGGCATTGTTATGTCACATTATACATGGCACAACGTCACGGAGAGCTCAAGAATCACAACCAAgtacagtgacaaatctg--tatcttatgtttta-acttattcctgcag-----------------------------------------

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|5677123|gb|AI938253.1|AI938253
EST:     TCTCATTATACCTGGCATAATGTGACTGAGAGTTCAAGAATCACTACCAA                         GCATTCTTTTGCAACCTTGTCTTTTGTTGCTGAGATCTTTATCTTCCTTTA
genomic: TCTCATTATACCTGGCATAATGTGACTGAGAGTTCAAGAATCACTACCAAgtatgtcttc ... actcttgcagGCATTCTTTTGCAACCTTGTCTTTTGTTGCTGAGATCTTTATCTTCCTTTA
EST: gi|24136423|gb|BU926933.1|BU926933
EST:     TCTCATTATACCTGGCATAATGTGACTGAGAGTTCAAGAATCACTACCAA                         GCATTCTTTTGCAACCTTGTCTTTTGTTGCTGAGATCTTTATCTTCCTTTA
genomic: TCTCATTATACCTGGCATAATGTGACTGAGAGTTCAAGAATCACTACCAAgtatgtcttc ... actcttgcagGCATTCTTTTGCAACCTTGTCTTTTGTTGCTGAGATCTTTATCTTCCTTTA