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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgcttctgacatagtaatgctgaagttttattttttggaatatttttttcttttttattactttttgggttttggcagataatgatagtgctagctttttggtgcttctgataactgtgcatttgaattatcaatctaatatctacattttaataaactttattgtgcatgactacctattgtgcagATAACAGATTTGCCCTTTTCTCTGTACTCAACTTTTGTGATTGAGGCCCGTCATGGTTTTAATAAG

Basic information

species Glycine max
transcript GLYMA09G39150.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA09G39150.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM5G813909_T01 (Zea mays), 3'ss of exon 4
gtatgcttctgacatagtaatgctgaagttttattttttggaatatttttttcttttttattactttttgggttttggcagataatgatagtgctagctttttggtgcttctgataactgtgcatttgaattatcaatctaatatctacattttaata-aactttattgtgcatgactacctattgtgcagATAACAGATTTGCCCTTTTCTCTGTACTCAACTTTTGTGATTGAGGCCCGTCATGGTTTTAATAAG
                                                                                | |   || |   || |   | | | ||  |  || | ||| ||| |           || ||||||||  ||| ||         |  ||||| ||| | |    ||||||| ||||| ||||| || ||||| || ||||||||||| || ||||| || ||||||||||| |||
------------------------------------------------------------------------------gtgctggagaaacaacttgtcatctagagca-caaatgattgt-catata----------ctcatatctactatttgatgtggagcagtaatgcat-acttcatgaaatgcagATTACAGACTTGCCGTTCTCTCTCTATTCAACTTTTGTTATAGAGGCTCGACATGGTTTTAACAAG

upper sequence: GLYMA09G39150.1 (Glycine max), 3'ss of exon 4
lower sequence: AT4G01320.1 (Arabidopsis thaliana), 3'ss of exon 4
gtatgcttctgacatagtaatgctgaagttttattttttggaatatttttttcttttttattactttttgggttttggcagataatgatagtgctagctttttggtgcttctgataactgtgcatttgaattatcaatctaatatctacattttaataaactttattgtgcatgactacctattgtgcagATAACAGATTTGCCCTTTTCTCTGTACTCAACTTTTGTGATTGAGGCCCGTCATGGTTTTAATAAG
                                                                                          ||| |     |      ||||  |||    |  |  |  |  |||||   ||||||||  || | | | |   || | |   |       | |  ||||||| || |||||||| |||||| ||||||||||||| ||||| ||| | || ||||| || || || 
------------------------------------------------------------------------------------------gtgttccaaataaaccccttcatatagtcctatacgtttagcatcaa---aatatctattttctta-agataataatatttcttttatattctgatgcagATCACTGATTTGCCATTTTCTTTGTACTCAACTTTCGTGATCGAGTCTCGGCATGGGTTCAACAAA

upper sequence: GLYMA09G39150.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv15s0046g02040.t01 (Vitis vinifera), 3'ss of exon 4
gtatgcttctgacatagtaatgctgaagttttattttttggaatatttttttcttttttattactttttgggttttggcagataatgatagtgctagctttttggtgctt-ctgataactgtgcatttgaattatcaatctaatat-ctacatt--ttaataaactttattgtgcatgactacctattgtgcagATAACAGATTTGCCCTTTTCTCTGTACTCAACTTTTGTGATTGAGGCCCGTCATGGTTTTAATAAG
                                                                                              ||  ||||   ||  |  | | |  | |||| | ||||  | |   |  ||| |||| ||  | ||   ||   ||| ||  |   ||  | |  ||||||| || |||||||| |||||||| |||||||||||||||||||||||||| |||||||| || || 
---------------------------------------------------------------------------------------------ttactttttgaatggatattcacatgtatgcactggaatggttatatttgtattctactttaatcaagcgacaacattttgttttg-taattttcttgcagATTACTGATTTGCCATTTTCTCTATACTCAACTTTTGTGATTGAGGCCCGCCATGGTTTCAACAAA

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|193463989|gb|FK428319.1|FK428319
EST:     CCCTTGCCTTCTTAGCAGGGCTGCTGATTTGGTCACAG                         ATAACAGATTTGCCCTTTTCTCTGTACTCAACTTTTGTGATTGAGGCCCGT
genomic: CCCTTGCCTTCTTAGCAGGGCTGATGATTTGGTCACAGgtatgcttct ... tattgtgcagATAACAGATTTGCCCTTTTCTCTGTACTCAACTTTTGTGATTGAGGCCCGT
EST: gi|15202361|gb|BI425361.1|BI425361
EST:     AAATACTGCATACCCTTGCCTTCTTAGCAGGGCTGATGATTTGGTCACAG                         ATAACAGATTTGCCCTTTTCTCTGTACTCAACTTTTGTGATTGAGGCCCGT
genomic: AAATACTGCATACCCTTGCCTTCTTAGCAGGGCTGATGATTTGGTCACAGgtatgcttct ... tattgtgcagATAACAGATTTGCCCTTTTCTCTGTACTCAACTTTTGTGATTGAGGCCCGT
EST: gi|192302658|gb|FG994896.1|FG994896
EST:     AAATACTGCATACCCTTGCCTTCTTAGCAGGGCTGATGATTTGGTCACAG                         ATAACAGATTTGCCCTTTTCTCTGTACTCAACTTTTGTGATTGAGGCCCGT
genomic: AAATACTGCATACCCTTGCCTTCTTAGCAGGGCTGATGATTTGGTCACAGgtatgcttct ... tattgtgcagATAACAGATTTGCCCTTTTCTCTGTACTCAACTTTTGTGATTGAGGCCCGT
EST: gi|193425164|gb|FK389893.1|FK389893
EST:     AAATACTGCATACCCTTGCCTTCTTAGCAGGGCTGATGATTTGGTCACAG                         ATAACAGATTTGCCCTTTTCTCTGTACTCAACTTTTGTGATTGAGGCCCGT
genomic: AAATACTGCATACCCTTGCCTTCTTAGCAGGGCTGATGATTTGGTCACAGgtatgcttct ... tattgtgcagATAACAGATTTGCCCTTTTCTCTGTACTCAACTTTTGTGATTGAGGCCCGT
EST: gi|4396612|gb|AI495609.1|AI495609
EST:     AAATACTGCATACCCTTGCCTTCTTAGCAGGGCTGATGATTTGGTCACAG                         ATAACAGATTTGCCCTTTTCTCTGTACTCAA
genomic: AAATACTGCATACCCTTGCCTTCTTAGCAGGGCTGATGATTTGGTCACAGgtatgcttct ... tattgtgcagATAACAGATTTGCCCTTTTCTCTGTACTCAA
EST: gi|209708354|gb|BW683944.1|BW683944
EST:     AAATACTGCATACCCTTGCCTTCTTAGCAGGGCTGATGATTTGGTCACAG                         ATAACAGATTTGCCCTTTTCTCTGTACTCAACTTTTGTGAT
genomic: AAATACTGCATACCCTTGCCTTCTTAGCAGGGCTGATGATTTGGTCACAGgtatgcttct ... tattgtgcagATAACAGATTTGCCCTTTTCTCTGTACTCAACTTTTGTGAT
EST: gi|207689928|gb|GD672433.1|GD672433
EST:     CCTTCTTAGCAGGGCTGATGATTTGGTCACAG                         ATAACAGATTTGCCCTTTTCTCTGTACTCAACTTTTGTGATTGAGGCCCGT
genomic: CCTTCTTAGCAGGGCTGATGATTTGGTCACAGgtatgcttct ... tattgtgcagATAACAGATTTGCCCTTTTCTCTGTACTCAACTTTTGTGATTGAGGCCCGT
EST: gi|213594940|gb|DB971799.1|DB971799
EST:     AAATACTGCATACCCTTGCCTTCTTAGCAGGGCTGATGATTTGGTCACAG                         ATAACAGATTTGCCCTTTTCTCTGTACTCAACTTTTGTGATTGAGGCCCGT
genomic: AAATACTGCATACCCTTGCCTTCTTAGCAGGGCTGATGATTTGGTCACAGgtatgcttct ... tattgtgcagATAACAGATTTGCCCTTTTCTCTGTACTCAACTTTTGTGATTGAGGCCCGT
EST: gi|193346112|gb|FK310528.1|FK310528
EST:     AAATACTGCATACCCTTGCCTTCTTAGCAGGGCTGATGATTTGGTCACAG                         ATAACAGATTT
genomic: AAATACTGCATACCCTTGCCTTCTTAGCAGGGCTGATGATTTGGTCACAGgtatgcttct ... tattgtgcagATAACAGATTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatctaatatctacattttaataaactttattgtgcatgactacctattgtgcagATAACAGATTTGCCCTTTTCTCTGTACTCAACTTTTGTGATTGAGGCCCGTCATGGTTTTAATAAG
               ttttaat  putative branch site (score: 3)
     aatatctacattttaa  TA-rich tract