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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGATGAAGCTGTTCCTTGCATTGCACTCTCAAAGAACGACTCATATGTTATGTCTGCATGTGGCGGAAAGATTTCTTTGTTTAACATGATGACATTCAAGgtacatgtccagagatacaagtacaaccattacattccgttccgctgctatgttttctgtttacttatggtttattttctatcag

Basic information

species Glycine max
transcript GLYMA19G41840.2
intron # 20
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA19G41840.1 (Glycine max), 5'ss of exon 20
lower sequence: LOC_Os01g15020.2 (Oryza sativa), 5'ss of exon 20
TGATGAAGCTGTTCCTTGCATTGCACTCTCAAAGAACGACTCATATGTTATGTCTGCATGTGGCGGAAAGATTTCTTTGTTTAACATGATGACATTCAAGgtacatgtccagagatacaagtacaaccattacattccg-ttccgctgctatgttttctgtttacttatggtttattttctatcag
||| || || ||||| |||||||| ||||| ||||| || || ||||| |||||||||||||| || ||| ||||  ||||||||||||||||||| |||||| |||  || | ||     |   |  | ||| |     ||| |    | |   || || || |||   |               
TGAGGATGCAGTTCCATGCATTGCTCTCTCCAAGAATGATTCTTATGTGATGTCTGCATGTGGTGGGAAGGTTTCACTGTTTAACATGATGACATTTAAGgtaaatgctca-atatcttttttggataaatacttcaaaattcaggaaattttaattatgcttccttcatgcag------------

upper sequence: GLYMA19G41840.1 (Glycine max), 5'ss of exon 20
lower sequence: GRMZM2G316967_T01 (Zea mays), 5'ss of exon 20
TGATGAAGCTGTTCCTTGCATTGCACTCTCAAAGAACGACTCATATGTTATGTCTGCATGTGGCGGAAAGATTTCTTTGTTTAACATGATGACATTCAAGgtacatgtccagagatacaagtacaaccatt----acattccg--------ttccgctgctatgttttctgtttact-tatggtttattt-tctatcag--
 || || || ||||| |||||||||||||||||||| || || ||||| |||||||| ||||| || ||| |||||||||||||||||||||||||||||||| ||||| |   ||   | |   |  |||    | | | |         |   ||   | ||||| |  |   || | | |||| ||| ||| | |   
AGAGGAGGCAGTTCCATGCATTGCACTCTCAAAGAATGATTCCTATGTGATGTCTGCTTGTGGTGGGAAGGTTTCTTTGTTTAACATGATGACATTCAAGgta-atgtctaactattttattctgatgatttttcaaacttcaagaagagttagggcctgtttgtttaccctcatctgtgttgtttgtttgtctcttaact

upper sequence: GLYMA19G41840.1 (Glycine max), 5'ss of exon 20
lower sequence: GRMZM2G416836_T01 (Zea mays), 5'ss of exon 18
TGATGAAGCTGTTCCTTGCATTGCACTCTCAAAGAACGACTCATATGTTATGTCTGCATGTGGCGGAAAGATTTCTTTGTTTAACATGATGACATTCAAGgtacatgtccagagatacaagtacaaccattacattccgttccgctgctatgttttctgtttacttatggtttattttctatcag
 || || ||  | || |||||||||||||| ||||| || || ||||| |||||||| ||||| || ||| |||||||||||| |||||||||||| |||||| ||||| |    |   | |   |  |  |  ||| | |      | |     | |  | |   ||  || ||          
AGAGGAGGCAATCCCATGCATTGCACTCTCCAAGAATGATTCCTATGTGATGTCTGCTTGTGGTGGGAAGGTTTCTTTGTTTACCATGATGACATTTAAGgta-atgtctaactgttttattctgatgaa-attttcagattt----caagaagatttaatcatgcatccttcatgcag------

upper sequence: GLYMA19G41840.1 (Glycine max), 5'ss of exon 20
lower sequence: AT5G27030.1 (Arabidopsis thaliana), 5'ss of exon 20
TGATGAAGCTGTTCCTTGCATTGCACTCTCAAAGAACGACTCATATGTTATGTCTGCATGTGGCGGAAAGATTTCTTTGTTTAACATGATGACATTCAAGgtacatgtc-----cagagatacaagtacaaccattacattccgttccgctgctatgttt-------tctgttta---cttatggtt----tattttctatcag-------------------
|||  | ||||  || ||||| || ||||| ||||||||||||||||| ||||||||   ||| |||||  | || ||||| ||||||||||| || |||||| || |       |   |   ||  | | |||  | ||| |   | |    | |  |        |||  | |   ||| |||||    || |||| |  |                    
TGAAAACGCTGCCCCATGCATCGCTCTCTCTAAGAACGACTCATATGTCATGTCTGCTGCTGGAGGAAAAGTCTCGTTGTTCAACATGATGACTTTTAAGgtatatattatctatatgaacttaaaaaaagccacaagatttctaactgaaaatgttctcacactaatctagtaaactcttttggttgttctaatttccacaaaaaaactattggccttatag

upper sequence: GLYMA19G41840.1 (Glycine max), 5'ss of exon 20
lower sequence: Vv14s0060g01680.t01 (Vitis vinifera), 5'ss of exon 20
TGATGAAGCTGTTCCTTGCATTGCACTCTCAAAGAACGACTCATATGTTATGTCTGCATGTGGCGGAAAGATTTCTTTGTTTAACATGATGACATTCAAGgtacatgtccagagatacaagtacaaccattacattccgttccgctgctatgtt--ttctgtttacttatggtttattttctatcag
||| ||||| || || ||||| ||||| || ||||| ||||||||||| ||||| || ||||| |||||  ||||  | || |||||||||||||||||||||  |||| | | ||   |||    |   | |||    ||  ||   |    |  ||  |  |  |  || |||  ||| ||    
TGAAGAAGCAGTCCCATGCATAGCACTATCGAAGAATGACTCATATGTAATGTCGGCCTGTGGTGGAAAAGTTTCCCTCTTCAACATGATGACATTCAAGgta--tgtctaaacatcacagttttgcatcttcatcaaatttggcatttgaaatggtttagcatgatgttgctttcatttgtag---

upper sequence: GLYMA19G41840.1 (Glycine max), 5'ss of exon 20
lower sequence: PP1S99_260V6.1 (Physcomitrella patens), 5'ss of exon 20
TGATGAAGCTGTTCCTTGCATTGCACTCTCAAAGAACGACTCATATGTTATGTCTGCATGTGGCGGAAAGATTTCTTTGTTTAACATGATGACATTCAAGgtacatgtccagagatacaagtacaaccattacattcc--gttccgctgctatgttttc---tgtttacttatggtttatttt-----ctatcag-------------------------------------
||| || || || |||||||| || ||||| || |||||||| ||||| |||||||| |  || || ||  |||||||||| ||||||||||||||||||||| |   |  ||   |  || |   | |||  ||||   ||||   |  |||| |       ||||  || | | | |||||      | |||                                      
TGAAGATGCCGTGCCTTGCATAGCGCTCTCTAAAAACGACTCTTATGTGATGTCTGCGTCCGGAGGGAAAGTTTCTTTGTTCAACATGATGACATTCAAGgtaaagtccgcgaatcatgagga-gtctattttattctttgttctaataatatggtgagaagcgttttgtttttggtaattttgacagttgtcaatttttattctgacgcttttcttcggattttgactcag

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|7232737|gb|AW568091.1|AW568091
EST:     TGACATTCAAG                         GTAATGACAACATTCATGCCACCACCCCCTGCCTCTACCTTTCTGGCTTTC
genomic: TGACATTCAAGgtacatgtcc ... tttctatcagGTAATGACAACATTCATGCCACCACCCCCTGCCTCTACCTTTCTGGCTTTC