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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACCATTGCACCTGGACTATATGCGCCTGTCCACCAACATTTTTTTGTTGCTCGTATGGACATGGCAGTAGATTGCAAGCCTGGTGAAGCATTTAATCAGGttagaatgcaatttcattttcaagtgggcaggttctttaatgcaaaaggcaaatttttcttctcccccacctggcctaatcttataatagtaacaatagt...

Basic information

species Glycine max
transcript GLYMA18G20800.1
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G20800.1 (Glycine max), 5'ss of exon 8
lower sequence: Vv00s0225g00090.t01 (Vitis vinifera), 5'ss of exon 8
-ACCATTGCACCTGGACTATATGCGCCTGTCCACCAACATTTTTTTGTTGCTCGTATGGACATGGCAGTAGATTGCAAGCCTGGTGAAGCATTTAATCAGGttagaatgcaatttcattttcaagtgggcaggttctttaatgcaaaaggcaaatttttcttctcccccacctggcctaatcttataatagtaacaa-tagt---
 || |||||||||||| ||||||| || ||||| || || || ||||| ||||||||||||||||| || ||||| |||||||| ||  |||| |||||||| |   |  ||     ||||||   ||     | ||||  |   |       ||| ||| | |     |  |    || || || | |   ||    || |   
AACTATTGCACCTGGATTATATGCACCAGTCCATCAGCACTTCTTTGTAGCTCGTATGGACATGGCTGTTGATTGTAAGCCTGGGGAGACATTCAATCAGgtaaatttataaga--gttttca---ggatctttccttttttatgactttggtattgttcctttgtaagatttccaatattcataaatttccaatgtctaatatt

upper sequence: GLYMA18G20800.1 (Glycine max), 5'ss of exon 8
lower sequence: PP1S36_16V6.2 (Physcomitrella patens), 5'ss of exon 7
-ACCATTGCACCTGGACTATATGCGCCTGTCCACCAACATTTTTTTGTTGCTCGTATGGACATGGCAGTAGATTGCAAGCCTGGTGAAGCATTTAATCAGGttagaatg--caatttcattttcaagtgg---gcaggttctttaatgcaaaaggcaaatttttcttctcccccacctggcctaatcttataatagtaacaatagt-------------------------------
    ||||| |||||  ||||||| ||||| |||||||| || || || || ||| ||||||||||||| ||||| || ||||| |||| ||| || |||||  |  |   ||| ||||||| | | |      || | ||          | |   || ||||   ||      |      ||||     |||   || || ||                                
TGTAATTGCGCCTGGGTTATATGCCCCTGTACACCAACACTTCTTCGTGGCGCGTCTGGACATGGCAGTGGATTGTAATCCTGGCGAAGGATTGAACCAGgtacgtgtcgtcaagttcatttcctattacctcacaagctcccagggtttcatgtgtaaattttgagcttgatttcagaatataataa-gcaattacaaaaaaagggacctgacaactaagcttctcgttgacacag

upper sequence: GLYMA18G20800.1 (Glycine max), 5'ss of exon 8
lower sequence: PP1S178_54V6.1 (Physcomitrella patens), 5'ss of exon 10
-ACCATTGCACCTGGACTATATGCGCCTGTCCACCAACATTTTTTTGTTGCTCGTATGGACATGGCAGTAGATTGCAAGCCTGGTGAAGCATTTAATCAGGt-tagaat--gcaatttcattttcaagtgggcaggttctttaatgcaaaag---gcaaatttttcttctcccc-cacctggcctaatcttataatagtaacaatagt
    || |||||||| || |||||||| || |||||||||||||| || || ||  |||||||||| || || || || ||||| |||| | ||||||||||  | ||   |    ||   || ||    || |  |    | ||| |   |   |||         ||||     || |  |  ||| | ||  | | | ||     
TGTGATAGCACCTGGTCTCTATGCGCCGGTACACCAACATTTTTTCGTCGCCCGATTGGACATGGCTGTTGACTGTAAACCTGGCGAAGGACTTAATCAGgtacaaaactaggggcttttcttacataaaggtatctaaagtcatgtattggtgcgcagggaaccagtctcttagtacataactcaatttcatccttgca-cag----

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|58018333|gb|CX705075.1|CX705075
EST:     TCGTATGGACATGGCAGTAGATTGCAAGCCTGGTGAAGCATTTAATCAGG                         TCGTTGAGGTAAATGTCAAAGTTGAAAAGCCAGGAGACAATAATGTTCATA
genomic: TCGTATGGACATGGCAGTAGATTGCAAGCCTGGTGAAGCATTTAATCAGGttagaatgca ... tctgcccaggTCGTTGAGGTAAATGTCAAAGTTGAAAAGCCAGGAGACAATAATGTTCATA
EST: gi|21887761|gb|BQ740974.1|BQ740974
EST:     TCGTATGGACATGGCAGTAGATTGCAAGCCTGGTGAAGCATTTAATCAGG                         TCGTTGAGGTAAATGTCAAAGTTGAAAAGCCAGGAGACAATAATGTTCATA
genomic: TCGTATGGACATGGCAGTAGATTGCAAGCCTGGTGAAGCATTTAATCAGGttagaatgca ... tctgcccaggTCGTTGAGGTAAATGTCAAAGTTGAAAAGCCAGGAGACAATAATGTTCATA
EST: gi|18733865|gb|BM527856.1|BM527856
EST:     TCGTATGGACATGGCAGTAGATTGCAAGCCTGGTGAAGCATTTAATCAGG                         TCGTTGAGGTAAATGTCAAAGTTGAAAAGCCAGGAGACAATAATGTTCATA
genomic: TCGTATGGACATGGCAGTAGATTGCAAGCCTGGTGAAGCATTTAATCAGGttagaatgca ... tctgcccaggTCGTTGAGGTAAATGTCAAAGTTGAAAAGCCAGGAGACAATAATGTTCATA
EST: gi|192322691|gb|FK014382.1|FK014382
EST:     TCGTATGGACATGGCAGTAGATTGCAAGCCTGGTGAAGCATTTAATCAGG                         TCGTTGAGGTAAATGTCAAAGTTGAAAAGCCAGGAGACAATAATGTTCATA
genomic: TCGTATGGACATGGCAGTAGATTGCAAGCCTGGTGAAGCATTTAATCAGGttagaatgca ... tctgcccaggTCGTTGAGGTAAATGTCAAAGTTGAAAAGCCAGGAGACAATAATGTTCATA

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ACCATTGCACCTGGACTATATGCGCCTGTCCACCAACATTTTTTTGTTGCTCGTATGGACATGGCAGTAGATTGCAAGCCTGGTGAAGCATTTAATCAGGttagaatgcaatttcattttcaagtgggcaggttctttaatgcaaaaggcaaatttttcttctcccccacctggcctaatcttataatagtaacaatagt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctccccc