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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagagattctttaacctgtctcttgaatatgctttctgtcctactttcttgaagttatgtgccattctttctacagTTATAGCATGGTCTTGGCAGACAACGTTGATGGTGGGGATGATCTTGATCTAATTGTCACAACTATGAATGGCAATGTCTTCTGCTTCTCAACCCCGTCT

Basic information

species Glycine max
transcript GLYMA01G27250.1
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA01G27250.2 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os03g61050.1 (Oryza sativa), 3'ss of exon 10
gtaagagattctttaacctgtctcttgaatatgctttctgtcctactttcttga---agttatgtgccattctttct---------acagTTATAGCATGGTCTTGGCAGACAACGTTGATGGTGGGGATGATCTTGATCTAATTGTCACAACTATGAATGGCAATGTCTTCTGCTTCTCAACCCCGTCT
||| || |||  ||   |||  |    | | ||   ||||| | | ||||| ||   |   | ||| |   |||  |         |||| || || ||||| ||||| || || ||||||||||| ||||| || ||||| ||||| || || |||||||||||||||||||||||||| || || |||
gtatgacatttcttg-tctgctttgcaattctgtactctgtacaa-tttctggattcaacaaagtggctcacttctttgcatattgacagGTACAGTATGGTTTTGGCTGATAATGTTGATGGTGGAGATGACCTCGATCTTATTGTTACTACCATGAATGGCAATGTCTTCTGCTTCTCCACTCCCTCT

upper sequence: GLYMA01G27250.2 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM2G479744_T01 (Zea mays), 3'ss of exon 6
-----------------------gtaagagattctttaacctgtctcttgaatatgctttctgtcctactttcttgaagttat-gtgccattctttcta-cagTTATAGCATGGTCTTGGCAGACAACGTTGATGGTGGGGATGATCTTGATCTAATTGTCACAACTATGAATGGCAATGTCTTCTGCTTCTCAACCCCGTCT
                          |||  ||   || | |  ||   || |  |       |     |    ||   | || ||  || | |  ||  ||| || |  ||||| ||||| || ||||| |||||||| ||||| |||||||| ||||| || |||||||||||||| |||||||||||||| || |  || 
gtatgccttatcttctttgcttttctagatgtttgatatcattgctggggattgggtacatcatttccataaagtgggctgattgttgcactttgactgtcagGTACACTATGGTTTTGGCTGATAACGTGGATGGTGGAGATGACCTTGATCTTATTGTTACCACTATGAATGGCAACGTCTTCTGCTTCTCCACTCAATCA

upper sequence: GLYMA01G27250.2 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM2G105976_T01 (Zea mays), 3'ss of exon 2
--------------------gtaagagattctt-taacctgtctcttgaatatgctttc-tgtcctactttcttgaagttatgtgccattctttctacagTTATAGCATGGTCTTGGCAGACAACGTTGATGGTGGGGATGATCTTGATCTAATTGTCACAACTATGAATGGCAATGTCTTCTGCTTCTCAACCCCGTCT
                     |  |||||| |  || | | | |    | | | ||| | |     |  | |    | || | |||  ||      |||| || | |||||| ||||| ||||| || ||||| || || ||||||||||| ||||| || |||||||| ||||| |||||  |||| || || || || 
tatgcaatttattctctgctctgcgagattttggtagcatttttgggtactgtacttacatcaataaagtgcgctcacttctttgcactttgactgacagGTACACCATGGTTTTGGCTGACAATGTGGATGGCGGAGACGATCTTGATCTTATTGTTACTACTATGAACGGCAACGTCTTTAGCTTTTCCACTCCCTCA

upper sequence: GLYMA01G27250.2 (Glycine max), 3'ss of exon 10
lower sequence: AT3G09090.2 (Arabidopsis thaliana), 3'ss of exon 10
gtaagagattctttaacctgtctcttgaatatgctttctgtcctactttcttgaagttatgtgccattctttctacagTTATAGCATGGTCTTGGCAGACAACGTTGATGGTGGGGATGATCTTGATCTAATTGTCACAACTATGAATGGCAATGTCTTCTGCTTCTCAACCCCGTCT
|||||  |  ||||  | |       | |  |  | |||    || | | ||||       || | |||    ||||| || |||||||||||||| || || ||||| ||||| |||||||| ||||| |||||| ||||||||||||| || ||||| ||||||||||| || |||
gtaagtca--cttttgcttcctctcggcacgtaatatct---ttagtattttgaccaccaatgtctttcgagttacagATACAGCATGGTCTTGGCTGATAATGTTGACGGTGGAGATGATCTCGATCTTATTGTCTCAACTATGAATGGAAACGTCTTTTGCTTCTCAACGCCTTCT

upper sequence: GLYMA01G27250.2 (Glycine max), 3'ss of exon 10
lower sequence: Vv08s0007g01790.t01 (Vitis vinifera), 3'ss of exon 10
gtaagagattctttaacctgtctcttgaatatgctttctgtcctactttcttgaagttatgtgccat--------tctttctacagTTATAGCATGGTCTTGGCAGACAACGTTGATGGTGGGGATGATCTTGATCTAATTGTCACAACTATGAATGGCAATGTCTTCTGCTTCTCAACCCCGTCT
|||||  || ||  |       || ||  ||   || ||||   | |||    || || | |   ||          ||  ||||| |||||||||||| |||| ||||| ||||||||||| |||||||||||||| ||||| ||||| |||||||||||||| || ||||| ||||| ||  ||
gtaagttatcctccactactattcatgtttagttttactgtttaatttttcaaaatttgtttaaaatataaatgcctttattacagATATAGCATGGTCCTGGCGGACAATGTTGATGGTGGAGATGATCTTGATCTTATTGTTACAACCATGAATGGCAATGTATTTTGCTTTTCAACTCCTGCT

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|254347805|gb|GR854054.1|GR854054
EST:     ATTGATGGACCTACTGGATGTGCTGATGTTGTTGACATTGGTGAAACTTC                         TTATAGCATGGTCTTGGCAGACAACGTTGATGGTGGGGATGATCTTGATCT
genomic: ATTGATGGACCTACTGGATGTGCTGATGTTGTTGACATTGGTGAAACTTCgtaagagatt ... ctttctacagTTATAGCATGGTCTTGGCAGACAACGTTGATGGTGGGGATGATCTTGATCT
EST: gi|151402169|gb|EV271982.1|EV271982
EST:     ATTGATGGACCTACTGGATGTGCTGATGTTGTTGACATTGGTGAA-CTTC                         TTATAGCATGGTCTTGGCAG
genomic: ATTGATGGACCTACTGGATGTGCTGATGTTGTTGACATTGGTGAAACTTCgtaagagatt ... ctttctacagTTATAGCATGGTCTTGGCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttgaatatgctttctgtcctactttcttgaagttatgtgccattctttctacagTTATAGCATGGTCTTGGCAGACAACGTTGATGGTGGGGATGATCTTGATCTAATTGTCACAACTATGAATGGCAATGTCTTCTGCTTCTCAACCCCGTCT
                                        ccattctttct  CT-rich tract
                              aagttat  TA-rich tract