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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagcattgtgtaatttattggagcaaatcgttagatttaatatattgcagtatttttcttgagaggacatgtaagtatttatatattattatgcttagatttgcatcctcatcttatactccgtatatgaatttctagGTCAAGGCTCTATACATATGATGATGTGGTGGAGAAAGTGGCTCAACAACTTGGTTTGGATGATCCATCCATAATTAGGCTTACCCCTCACAATTGCTAC

Basic information

species Glycine max
transcript GLYMA02G43930.1
intron # 22
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G43930.1 (Glycine max), 3'ss of exon 22
lower sequence: GRMZM2G303655_T01 (Zea mays), 3'ss of exon 12
gtaagcattgtgtaatttattggagcaaatcgttagatttaatatattgcagtatttttcttgagaggacatgtaagtatttatatattattatgcttagatttgcatcctcatcttatactccgtatatgaatttctagGTCAAGGCTCTATACATATGATGATGTGGTGGAGAAAGTGGCTCAACAACTTGGTTTGGATGATCCATCCATAATTAGGCTTACCCCTCACAATTGCTAC
                                       |||   ||||||  | |     ||| |       |    ||||  |    | |    ||  ||   | |   ||| || |  | | | | |  |   ||||||| | |||  |||||||||||||||| || |||| ||| || || |||||||| |||||||||||||| |  ||  |||||||  |||||||||| || 
--------------------------------------gtaagggattgca--aatcaaactgataaactggttttacatttgaactgcagt---tttgaatcaacttaaacatgttttttttcttgttttcac--ctagGTCGAAGCTTCATACATATGATGATGTTGTTGAGAGAGTTGCACATCAACTTGGGTTGGATGATCCATCAAAGATACGGCTTACGTCTCACAATTGTTAT

upper sequence: GLYMA02G43930.1 (Glycine max), 3'ss of exon 22
lower sequence: GRMZM2G014805_T01 (Zea mays), 3'ss of exon 22
gtaagcattgtgtaatttattggagcaaatcgttagatttaatatattgcagtatttttcttgagaggacatgtaagtatttatatattattatgcttagatttgcatcctcat-cttatactccgtatatgaatttctagGTCAAGGCTCTATACATATGATGATGTGGTGGAGAAAGTGGCTCAACAACTTGGTTTGGATGATCCATCCATAATTAGGCTTACCCCTCACAATTGCTAC
           ||||   ||||   |||||      |  | ||| | ||   ||  |||       | || |        || ||  ||   |   || | |||| |||  ||| | |||        | |       |||||||| |||  |||| ||||||||||| || |||| ||| || ||  ||||||| |||||||||||||| |  ||| |||||||  |||||||||| || 
-----------gtaagggattg---caaat----gaaactgataaactggtttacattt-------gaactt-----cggttttacgttggaac-tttggttttgaatcaacatacatatgtgtttcttgttttcacttagGTCAAAGCTTCATACTTATGATGATGTTGTTGAGAGAGTTGCACATAAACTTGGGTTGGATGATCCATCAAAGATTCGGCTTACATCTCACAATTGTTAT

upper sequence: GLYMA02G43930.1 (Glycine max), 3'ss of exon 22
lower sequence: GRMZM2G418232_T01 (Zea mays), 3'ss of exon 1
gtaagcattgtgtaatttattggagcaaatcgttagatttaatatattgcagtatttttcttgagaggacatgtaagtatttatatattattatgcttagatttgcatcctcatcttatactccgtatatgaatttctagGTCAAGGCTCTATACATATGATGATGTGGTGGAGAAAGTGGCTCAACAACTTGGTTTGGATGATCCATCCATAATTAGGCTTACCCCTCACAATTGCTAC
                               || ||| ||    |||||  | ||  || ||         || || | ||||        |||   |    |   ||  |  | ||||  ||| |         || ||||||| |||  |||| ||||||||||| || |||| ||| ||||  |||||||  ||||| |||||| | | |||| ||||||| || ||||||||||||
-------------------------------gtgagagttttcttattgt-gcatcattgtttgt------tgaaattgtttaaccgaatatatatctcacctaatatgtttttattattttccatgc------ctcaagGTCAAAGCTTCATACCTATGATGATGTTGTTGAGAGAGTTGCTCGCCAACTTGAATTGGACGATCCAGCGAAAATTCGGCTTACACCCCACAATTGCTAC

upper sequence: GLYMA02G43930.1 (Glycine max), 3'ss of exon 22
lower sequence: Vv06s0009g00960.t01 (Vitis vinifera), 3'ss of exon 22
gtaagcattgtgtaatttattggagcaaatcgttagatttaatatattgcagtatttttcttgagaggacatgtaagtatttatatattattatgcttagatttgcatcctcatcttatactccgtatatgaatttctagGTCAAGGCTCTATACATATGATGATGTGGTGGAGAAAGTGGCTCAACAACTTGGTTTGGATGATCCATCCATAATTAGGCTTACCCCTCACAATTGCTAC
                                                      |   |   || |  |  ||||| || |     |  |||||| ||| | ||   |    | ||  | |     |||||||| || ||||||| ||| | ||| |||||||| ||||| || | ||| ||||  || |||||||||||||||||||||| ||| ||||| ||  ||||||| || |||
-----------------------------------------------------gtaagtgcagaaatcaattgtaactaatc----agcattatgattatagtttatttactagctggtgc-----atatgaatgtccagGTCAAAGCTTTTTACTTATGATGACGTGGTAGAAAGAGTAGCTCGTCAGCTTGGTTTGGATGATCCATCCAAAATCAGGCTCACATCTCACAACTGTTAC

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|193562182|gb|FK519483.1|FK519483
EST:     ACTTTCGATCTCTAGAAAAACCAAAAGGAAGATGACTTCTGCCTGGAGAT                         GTCAAGGCTCTATACATATGATGATGTGGTGGAGAAAGTGGCTCAACAACT
genomic: ACTTTCGATCTCTAGAAAAACC-AAAGGAAGATGACTTCTGCCTGGAGATgtaagcattg ... gaatttctagGTCAAGGCTCTATACATATGATGATGTGGTGGAGAAAGTGGCTCAACAACT
EST: gi|8284486|gb|BE022045.1|BE022045
EST:     CACTTTCGATCTCTAGAAAAACCAAAGGAAGATGACTTCTGCCTGGAGAT                         GTCAAGGCTCTATACATATGATGATGTGGTGGAGAAAGTGGCTCAACAACT
genomic: CACTTTCGATCTCTAGAAAAACCAAAGGAAGATGACTTCTGCCTGGAGATgtaagcattg ... gaatttctagGTCAAGGCTCTATACATATGATGATGTGGTGGAGAAAGTGGCTCAACAACT
EST: gi|9819934|gb|BE555377.1|BE555377
EST:     CACTTTCGATCTCTAGAAAAACCAAAGGAAGATGACTTCTGCCTGGAGAT                         GTCAAGGCTCTATACATATGATGATGTGGTGGAGAAAGTGGCTCAACAACT
genomic: CACTTTCGATCTCTAGAAAAACCAAAGGAAGATGACTTCTGCCTGGAGATgtaagcattg ... gaatttctagGTCAAGGCTCTATACATATGATGATGTGGTGGAGAAAGTGGCTCAACAACT
EST: gi|151403606|gb|EV273416.1|EV273416
EST:     CACTTTCGATCTCTAGAAAAACCAAAGGAAGATGACTTCTGCCTGGAGAT                         GTCAAGGCTCTATACATATGATGATGTGGTGGAGAAAGTGGCTCAACAACT
genomic: CACTTTCGATCTCTAGAAAAACCAAAGGAAGATGACTTCTGCCTGGAGATgtaagcattg ... gaatttctagGTCAAGGCTCTATACATATGATGATGTGGTGGAGAAAGTGGCTCAACAACT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tattattatgcttagatttgcatcctcatcttatactccgtatatgaatttctagGTCAAGGCTCTATACATATGATGATGTGGTGGAGAAAGTGGCTCAACAACTTGGTTTGGATGATCCATCCATAATTAGGCTTACCCCTCACAATTGCTAC
                                                tttct  CT-rich tract
                                        tatatgaatttcta  TA-rich tract