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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagcatctgatattgaataattgccatttatggtgacttatgttttccaaaagattgtggtctagagtctagacaatgcatttcttgtagtgatgaattaatgacaagtgttgagtactataagtttaacattttttttcatctgcagATATGTGGGCAATGGGTGCTATAATGGCTGAGTTGTTCACTCTCCGTCCTCTATTCCCCGGTTCCAG

Basic information

species Glycine max
transcript GLYMA16G08080.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G08080.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os02g47220.3 (Oryza sativa), 3'ss of exon 5
gtaagcatctgatattgaataattgccatttatggtgacttatgttttccaaaagattgtggtctagagtctagacaatgcatttcttgtagtgatgaattaatgacaagtgttgagt-actataagtttaacattttttttc--atctgcagATATGTGGGCAATGGGTGCTATAATGGCTGAGTTGTTCACTCTCCGTCCTCTATTCCCCGGTTCCAG
                                                                || ||| |  || ||  | ||  | |  ||    ||  ||   |  |  | ||| |  ||  | | | |   ||||| |  |  ||||||||||||||| |||||||| |||||||| ||| |||| || || | |||||| || || ||  | ||
---------------------------------------------------------------gtaaagtttctactatctactttgtattttggcacat--atagtacatactaagtcatgattggatgatcccctttttgccaacttgcagATATGTGGGCTATGGGTGCCATAATGGCCGAGCTGTTGACACTTCATCCTCTTTTTCCTGGCACAAG

upper sequence: GLYMA16G08080.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G108829_T01 (Zea mays), 3'ss of exon 10
gtaagcatctgatattgaataattgccatttatggtgacttatgttttccaaaagattgtggtctagagtctagacaatgcatt-tcttgtagtga-tgaattaatgacaagtgttgagtactataagtttaacattttttttcatctgcagATATGTGGGCAATGGGTGCTATAATGGCTGAGTTGTTCACTCTCCGTCCTCTATTCCCCGGTTCCAG
                                              |   ||||      ||  ||   | |    | ||  || |||| |  ||  || |  ||       |||    |   ||   || | | |    | ||||    ||||||||||||||||||||| ||||||||||||||||| || |||| |||||| || || ||  | ||
---------------------------------------------gtatgaaaaataaaaggcttactatttgcttagtgttttgtcttttcatgggtggaccaactcagcttgtaacctgacatttcttcaccttgccatctcat----agATATGTGGGCAATGGGTGCCATAATGGCTGAGTTGTTGACACTCCATCCTCTCTTTCCTGGAACTAG

upper sequence: GLYMA16G08080.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G178822_T01 (Zea mays), 3'ss of exon 11
gtaagcatctgatattgaataattgccatttatggtgacttatgttttccaaaagattgtggtctagagtctagacaatgcatttcttgtagtgatgaattaatgacaagtg--ttgagt--actataagtttaacattttttt------tcatct-gcagATATGTGGGCAATGGGTGCTATAATGGCTGAGTTGTTCACTCTCCGTCCTCTATTCCCCGGTTCCAG
                                                      |  ||     || |    | | ||| |  ||    ||||| |    || | |    ||     | |  |||   | | | |||||| ||        |||||   ||||||||||||||||||||| |||||||||||| |||| || |||| |||||| || || ||  ||||
------------------------------------------------------gtatgaaaaataaaactaaaaaaatactatttgcttagtgtttgtctattcatggatggaccaactcaactcgtaatctgacatttcttcacctcgccatctcatagATATGTGGGCAATGGGTGCCATAATGGCTGAGCTGTTGACACTCCATCCTCTCTTTCCTGGAACCAG

upper sequence: GLYMA16G08080.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv02s0033g01110.t01 (Vitis vinifera), 3'ss of exon 7
gtaagcatctgatattgaataattgccatttatggtgacttatgttttccaaaagattgtggtctagagtct-agacaatgcatttcttgtagtgatgaattaatgacaagtgttgagtactataagtttaacattttttttcatctgcagATATGTGGGCAATGGGTGCTATAATGGCTGAGTTGTTCACTCTCCGTCCTCTATTCCCCGGTTCCAG
                                                 ||  | || || |   |||| || | |   |       ||| |   ||      ||         |    |||  || ||||      |||||   || ||||||||||||||||||||||||| |||||||| ||||| |||||||||||||| || || || || ||
-----------------------------------------------gtcagtatatagttggaaagagactgaaattttatgaagtttgaaaaaatatccatatttttgtctgtagacactgaaattttatttccattttttccctccagATATGTGGGCAATGGGTGCTATCATGGCTGAATTGTTTACTCTCCGTCCTCTCTTTCCAGGATCGAG

upper sequence: GLYMA16G08080.1 (Glycine max), 3'ss of exon 7
lower sequence: EFJ22662 (Selaginella moellendorffii), 3'ss of exon 5
gtaagcatctgatattgaataattgccatttatggtgacttatgttttccaaaagattgtggtctagagtctagacaatgcatttcttgtagtgatgaattaatgacaagtgttgagtactataagtttaacattttttttcatctgcagATATGTGGGCAATGGGTGCTATAATGGCTGAGTTGTTCACTCTCCGTCCTCTATTCCCCGGTTCCAG
                                  ||  ||| | || |      | | || |  ||   |       ||||||| | |   ||   |          | |||||    |||  |    |  |  |     ||  | |  || |||||||||||||||||||| ||||||||| | |||| |||| |                     
----------------------------------gtagcttcttttgtt-----gttcgttgcgtaatctt------atgcattacctcagGTACCGTGCC--CCGGAGGTGTT----ACTGCAGTCGTCTCTGTACAACTCTGCGGTCGACATGTGGGCAATGGGTGCTATCATGGCTGAGCTTTTCAATCTCAGG--------------------

upper sequence: GLYMA16G08080.1 (Glycine max), 3'ss of exon 7
lower sequence: EFJ11811 (Selaginella moellendorffii), 3'ss of exon 5
gtaagcatctgatattgaataattgccatttatggtgacttatgttttccaaaagattgtggtctagagtctagacaatgcatttcttgtagtgatgaattaatgacaagtgttgagtactataagtttaacattttttttcatctgcagATATGTGGGCAATGGGTGCTATAATGGCTGAGTTGTTCACTCTCCGTCCTCTATTCCCCGGTTCCAG
                                  ||  ||| | || |      | | || |  ||   |       |||| || | |   ||   |   |      | |||||    |||  |    |  |  |     ||  | |  || |||||||||||||||||||| ||||||||| | |||| |||| |                     
----------------------------------gtagcttcttttgtt-----gttcgttgcgtaatctt------atgctttacctcagGTACCGTGCT--CCGGAGGTGTT----ACTGCAGTCGTCTCTGTACAACTCTGCGGTCGACATGTGGGCAATGGGTGCTATCATGGCTGAGCTTTTCAATCTCAGG--------------------

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|207696428|gb|GD678217.1|GD678217
EST:     TCGTGCTCCTGAAGTCCTGCTTCAGTCCCATCTATATAGCTCTAAAGTTG                         ATATGTGGGCAATGGGTGCTATAATGGCTGAGTTGTTCACTCTCCGTCCTC
genomic: TCGTGCTCCTGAAGTCCTGCTTCAGTCCCATCTATATAGCTCTAAAGTTGgtaagcatct ... tcatctgcagATATGTGGGCAATGGGTGCTATAATGGCTGAGTTGTTCACTCTCCGTCCTC
EST: gi|208264634|gb|GE063954.1|GE063954
EST:     TCGTGCTCCTGAAGTCCTGCTTCAGTCCCATCTATATAGCTCTAAAGTTG                         ATATGTGGGCAATGGGTGCTATAATGGCTGAGTTGTTCACTCTCCGTCCTC
genomic: TCGTGCTCCTGAAGTCCTGCTTCAGTCCCATCTATATAGCTCTAAAGTTGgtaagcatct ... tcatctgcagATATGTGGGCAATGGGTGCTATAATGGCTGAGTTGTTCACTCTCCGTCCTC
EST: gi|208102908|gb|GD900898.1|GD900898
EST:     TCGTGCTCCTGAAGTCCTGCTTCAGTCCCATCTATATAGCTCTAAAGTTG                         ATATGTGGGCAATGGGTGCTATAATGGCTGAGTTGTTCACTCTCCGTCCTC
genomic: TCGTGCTCCTGAAGTCCTGCTTCAGTCCCATCTATATAGCTCTAAAGTTGgtaagcatct ... tcatctgcagATATGTGGGCAATGGGTGCTATAATGGCTGAGTTGTTCACTCTCCGTCCTC
EST: gi|10237923|gb|BE806811.1|BE806811
EST:     TCGTGCTCCTGAAGTCCTGCTTCAGTCCCATCTATATAGCTCTAAAGTTG                         ATATGTGGGCAATGGGTGCTATAATGGCTGAGTTGTTCACTCTCCGTCCTC
genomic: TCGTGCTCCTGAAGTCCTGCTTCAGTCCCATCTATATAGCTCTAAAGTTGgtaagcatct ... tcatctgcagATATGTGGGCAATGGGTGCTATAATGGCTGAGTTGTTCACTCTCCGTCCTC
EST: gi|207754685|gb|GD729308.1|GD729308
EST:     TCGTGCTCCTGAAGTCCTGCTTCAGTCCCATCTATATAGCTCTAAAGTTG                         ATATGTGGGCAATGGGTGCTATAATGGCTGAGTTGTTCACTCTCCGTCCTC
genomic: TCGTGCTCCTGAAGTCCTGCTTCAGTCCCATCTATATAGCTCTAAAGTTGgtaagcatct ... tcatctgcagATATGTGGGCAATGGGTGCTATAATGGCTGAGTTGTTCACTCTCCGTCCTC
EST: gi|10237927|gb|BE806815.1|BE806815
EST:     TCGTGCTCCTGAAGTCCTGCTTCAGTCCCATCTATATAGCTCTAAAGTTG                         ATATGTGGGCAATGGGTGCTATAATGGCTGAGTTGGTCACTCTGCGTCCTC
genomic: TCGTGCTCCTGAAGTCCTGCTTCAGTCCCATCTATATAGCTCTAAAGTTGgtaagcatct ... tcatctgcagATATGTGGGCAATGGGTGCTATAATGGCTGAGTTGTTCACTCTCCGTCCTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgaattaatgacaagtgttgagtactataagtttaacattttttttcatctgcagATATGTGGGCAATGGGTGCTATAATGGCTGAGTTGTTCACTCTCCGTCCTCTATTCCCCGGTTCCAG
                              gtttaac  putative branch site (score: 3)
                                    cattttttttcatct  CT-rich tract
                      tactataagtttaaca  TA-rich tract