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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagggaccttgtaattggttaacttctttaatatgtattatattattgtttttatttgttcttatgttggtacctttttgtgtggctgtgatagATATGACAAATTCTGCCCCTTCTACAAGTCTGTTTGGATGATGCGCAACATTATCCATTTCTACAATTTGGCAAATCAG

Basic information

species Glycine max
transcript GLYMA08G23990.1
intron # 17
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G23990.1 (Glycine max), 3'ss of exon 17
lower sequence: LOC_Os06g45120.1 (Oryza sativa), 3'ss of exon 16
gtaagggaccttgtaattggttaacttctttaatatgtattatattattgtttttatttg--------------ttcttatgttggtacctttttgtgtggctgtgatagATATGACAAATTCTGCCCCTTCTACAAGTCTGTTTGGATGATGCGCAACATTATCCATTTCTACAATTTGGCAAATCAG
|| ||  |     || ||  ||  ||  |||||||   |||   |  |||| | |||||               |||||  ||  |  | | | | | |   ||  | ||||||||||| ||||| || ||||||||||||||||||||||||||||||||||| |||||| | |  || |||||||||
gtgagtcataccctagtttttt--ctgatttaatacagatttattggttgtctctattttaatgattaaccattttctttagtctgatcatctctatataa-tgaaacagATATGACAAGTTCTGTCCATTCTACAAGTCTGTTTGGATGATGCGCAACATTATTCATTTCAATACATTAGCAAATCAG

upper sequence: GLYMA08G23990.1 (Glycine max), 3'ss of exon 17
lower sequence: LOC_Os06g45120.2 (Oryza sativa), 3'ss of exon 16
gtaagggaccttgtaattggttaacttctttaatatgtattatattattgtttttatttg--------------ttcttatgttggtacctttttgtgtggctgtgatagATATGACAAATTCTGCCCCTTCTACAAGTCTGTTTGGATGATGCGCAACATTATCCATTTCTACAATTTGGCAAATCAG---------------------
|| ||  |     || ||  ||  ||  |||||||   |||   |  |||| | |||||               |||||  ||  |  | | | | | |   ||  | ||||||||||| ||||| || ||||||||||||||||||||||||||||||||||| |||||| | |  || |||||||||                     
gtgagtcataccctagtttttt--ctgatttaatacagatttattggttgtctctattttaatgattaaccattttctttagtctgatcatctctatataa-tgaaacagATATGACAAGTTCTGTCCATTCTACAAGTCTGTTTGGATGATGCGCAACATTATTCATTTCAATACATTAGCAAATCAGGTAAATCTAACGTGTTTTTAC

upper sequence: GLYMA08G23990.1 (Glycine max), 3'ss of exon 17
lower sequence: LOC_Os02g07870.1 (Oryza sativa), 3'ss of exon 16
gtaagggaccttgtaattggttaacttctttaatatgtattatattattgtttttatttgttcttatgttggtacctttttgtgtggc-tgtgatagATATGACAAATTCTGCCCCTTCTACAAGTCTGTTTGGATGATGCGCAACATTATCCATTTCTACAATTTGGCAAATCAG
            || | || | |||   ||| |||  | |  ||   |   |  || |   | |||  |   |      || ||| || ||  | |||||||| || |  ||||| |||||||| |||||||||||||||||||||||||| |||||| |||  |||||||  |||
------------gtgagtgttaaacccatttgatagttctactaacctgtgtcataatccatattaactaattgatcaattctgttgcatgaaacagATATGATAAGTATTGCCCATTCTACAAATCTGTTTGGATGATGCGCAACATTATTCATTTCAACACATTGGCAACCCAG

upper sequence: GLYMA08G23990.1 (Glycine max), 3'ss of exon 17
lower sequence: GRMZM2G421857_T02 (Zea mays), 3'ss of exon 16
gtaagggaccttgtaattggttaacttctttaatatgtattatattattgtttttatttgttcttatgttggtacctttttgtgtggctgtgatagATATGACAAATTCTGCCCCTTCTACAAGTCTGTTTGGATGATGCGCAACATTATCCATTTCTACAATTTGGCAAATCAG
|| ||   |||  | |||  | |||   ||| ||    ||| |  |    | | | ||   | || | |||  |  |  | || |   | | |||||||||| || |||||||| |||||||| || ||||||||||||||||||||||| || ||| |||  ||||||||||||
gtgagtcccctacttatt--tcaacacatttgatgctcatttttctccattatattttaagtatttttttgacaagtgct-gtttaattat-atagATATGATAAGTTCTGCCCATTCTACAAATCCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAG

upper sequence: GLYMA08G23990.1 (Glycine max), 3'ss of exon 17
lower sequence: GRMZM2G128877_T03 (Zea mays), 3'ss of exon 13
gtaagggaccttgtaattgg---ttaacttctttaatatgtattatattattgtttttatttgttcttatgttggtacctttttgtgtggct--gtgatagATATGACAAATTCTGCCCCTTCTACAAGTCTGTTTGGATGATGCGCAACATTATCCATTTCTACAATTTGGCAAATCAG
 ||   ||||    |    |   ||   |  |  ||| | | |  |  ||||  |    ||| || ||    |  | |      |||| | |   |  ||||||||| || |||||||| |||||||| || ||||||||||||||||| ||||| || ||| |||  ||||||||||||
atactagaccaaaaatcaagattttgggtgttacaattt-tctactcatatttctccattttattttttaaataattctgacaagtgttgtttaatattagATATGATAAGTTCTGCCCATTCTACAAATCCGTTTGGATGATGCGCAATATTATTCACTTCAACACATTGGCAAATCAG

upper sequence: GLYMA08G23990.1 (Glycine max), 3'ss of exon 17
lower sequence: AT1G78900.2 (Arabidopsis thaliana), 3'ss of exon 17
gtaagggaccttgtaattggttaacttctttaatatgtattatattattgtttttatttgttcttatgttggtacctttttgtgtgg---ctgtgatagATATGACAAATTCTGCCCCTTCTACAAGTCTGTTTGGATGATGCGCAACATTATCCATTTCTACAATTTGGCAAATCAG
|||||     |||   |   ||   ||   |    |    | | ||  | | |  |   ||| ||   |    | | |||||  ||     | ||| ||||||||||||||||| || ||||||||||| || ||||||||||| ||||||||||||||||||||  | || || |||
gtaagatttgttg-gctcccttcgttttggtttagtactctctctttctctctcaacgggttattcactcttgaaccttttggatgaattttttgacagATATGACAAATTCTGTCCTTTCTACAAGTCCGTGTGGATGATGCGTAACATTATCCATTTCTACAACCTAGCCAACCAG

upper sequence: GLYMA08G23990.1 (Glycine max), 3'ss of exon 17
lower sequence: Vv04s0008g02580.t01 (Vitis vinifera), 3'ss of exon 17
----gtaagggaccttgtaattggt-taacttctttaatatgtattatattattgtttttatttgttcttatg-ttggtacctttttgtgtggctgtgatagATATGACAAATTCTGCCCCTTCTACAAGTCTGTTTGGATGATGCGCAACATTATCCATTTCTACAATTTGGCAAATCAG
     | ||  ||  |   | ||   |   || |||  | |   ||  | |    |||| |||   |   ||| ||  |   ||||||  ||| ||  | ||||||||||| || || ||||| |||||||| |||||||||||| | |||||||| |||||||| |||||||| ||||||
cactcttagtcactgtaggactgacatgggttattttttgttacttccaatcaaattttcattatcttccatgattattgattttttggttggttg--acagATATGACAAGTTTTGTCCCTTTTACAAGTCAGTTTGGATGATGAGGAACATTATTCATTTCTATAATTTGGCCAATCAG

upper sequence: GLYMA08G23990.1 (Glycine max), 3'ss of exon 17
lower sequence: Vv09s0054g00890.t01 (Vitis vinifera), 3'ss of exon 17
------------------------------------------------gtaagggaccttgtaattggttaacttctttaatatgtattatattattgtttttatttgttctta-tgttggtacctttttgtgtggctgtgatagATATGACAAATTCTGCCCCTTCTACAAGTCTGTTTGGATGATGCGCAACATTATCCATTTCTACAATTTGGCAAATCAG
                                                 |     || |  || ||  |||  |||     | | |  |    ||    || | |||   |||| | |  ||| ||     ||||||||||| |||||||| || |||||||||||||||||||| ||||||||||||||||| |||||||||||||| |||||||| ||||||
gtaagtcccagattaagtttttgattcaaattttcgtcctttttaatttttgtttacttactatttccttatgttcccctttttatgctggtctagaaattctttttccacttaatatatgtatctc---atgtggctgtgacagATATGATAAGTTCTGCCCCTTCTACAAGTCGGTTTGGATGATGCGCAATATTATCCATTTCTATAATTTGGCCAATCAG

upper sequence: GLYMA08G23990.1 (Glycine max), 3'ss of exon 17
lower sequence: PP1S8_312V6.1 (Physcomitrella patens), 3'ss of exon 17
-----------------------gtaagggaccttgtaattggttaacttctttaatatgtattatattattgttt-----ttatttgttctt--atgttggtacctttttgtgtggctgtgatagATATGACAAATTCTGCCCCTTCTACAAGTCTGTTTGGATGATGCGCAACATTATCCATTTCTACAATTTGGCAAATCAG
                       ||   |||  || |  | |||  |  | ||| || | |  | | |   ||||      || | ||||  |  ||||  |   |  |          |||| || ||||||||||||||||| |||||||||||||| ||||||||||| || ||| |||| ||| ||| | | |||||||||
gtgagctttgttgaaattttgttgtgtaggatgtt-tgttgggtagatgtttttcat-tattctgtgtccctgttcgacgattgtgtgtttctccatgtctgattcggtcctctcatacgtgacagTTATGACAAATTCTGCCCATTCTACAAGTCTGTGTGGATGATGCGTAATATTGTCCACTTCAACACTCTTGCAAATCAG

upper sequence: GLYMA08G23990.1 (Glycine max), 3'ss of exon 17
lower sequence: EFJ30330 (Selaginella moellendorffii), 3'ss of exon 17
gtaagggaccttgtaattggttaacttctttaatatgtattatattattgtttttatttgttcttatgttggtacctttttgtgtggctgtgatagATATGACAAATTCTGCCCCTTCTACAAGTCTGTTTGGATGATGCGCAACATTATCCATTTCTACAATTTGGCAAATCAG
                                 || || ||      ||| | || ||| |   ||       ||  |         |||    ||||| || || || || || ||||||||||| |||||||||||||| |||||  ||||||||| | |  || | | ||||
--------------------------------gtacgtgttccgggcttgctcttgtttatcgcta-------acaat---------ctgctccagATACGATAAGTTTTGTCCGTTCTACAAGTCCGTTTGGATGATGCGAAACATCGTCCATTTCTGCGACCTGTCCACTCAG

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|298182032|gb|HO026207.1|HO026207
EST:     ACTGCAAAGCTTTTGAGAGAGGATTATCTTGCTCAAAATGCCTTTACACC                         ATATGACAAATTCTGCCCCTTCTACAAGTCTGTTTGGATGATGCGCAACAT
genomic: ACTGCAAAGCTTTTGAGAGAGGATTATCTTGCTCAAAATGCCTTTACACCgtaagggacc ... gctgtgatagATATGACAAATTCTGCCCCTTCTACAAGTCTGTTTGGATGATGCGCAACAT
EST: gi|192305531|gb|FG998315.1|FG998315
EST:     ACTGCAAAGCTTTTGAGAGAGGATTATCTTGCTCAAAATGCCTTTACACC                         ATATGACAAATTCTGCCCCTTCTACAAGTCTGTTTGGATGATGCGCAACAT
genomic: ACTGCAAAGCTTTTGAGAGAGGATTATCTTGCTCAAAATGCCTTTACACCgtaagggacc ... gctgtgatagATATGACAAATTCTGCCCCTTCTACAAGTCTGTTTGGATGATGCGCAACAT
EST: gi|57575332|gb|CX548307.1|CX548307
EST:     ACTGCAAAGCTTTTGAGAGAGGATTATCTTGCTCAAAATGCCTTTACACC                         ATATGACAAATTCTGCCCCTTCTACAAGTCTGTTTGGATGATGCGCAACAT
genomic: ACTGCAAAGCTTTTGAGAGAGGATTATCTTGCTCAAAATGCCTTTACACCgtaagggacc ... gctgtgatagATATGACAAATTCTGCCCCTTCTACAAGTCTGTTTGGATGATGCGCAACAT
EST: gi|7639458|gb|AW733780.1|AW733780
EST:     ACTGCAAAGCTTTTGAGAGAGGATTATCTTGCTCAAAATGCCTTTACACC                         ATATGATAAATTTTGCCCCTTCTACAAGTCTGTTTGGATGATGCGCAACAT
genomic: ACTGCAAAGCTTTTGAGAGAGGATTATCTTGCTCAAAATGCCTTTACACCgtaagggacc ... gctgtgatagATATGACAAATTCTGCCCCTTCTACAAGTCTGTTTGGATGATGCGCAACAT
EST: gi|13787440|gb|BG650032.1|BG650032
EST:     ACTGCAAAGCTTTTGAGAGAGGATTATCTTGCTCAAAATGCCTTTACACC                         ATATGACAAATTCTGCCCCTTCTACAAGTCTGTTTGGATGATGCGCAACAT
genomic: ACTGCAAAGCTTTTGAGAGAGGATTATCTTGCTCAAAATGCCTTTACACCgtaagggacc ... gctgtgatagATATGACAAATTCTGCCCCTTCTACAAGTCTGTTTGGATGATGCGCAACAT
EST: gi|58024853|gb|CX711594.1|CX711594
EST:     ACTGCAAAGCTTTTGAGAGAGGATTATCTTGCTCAAAATGCCTTTACACC                         ATATGACAAATTCTGCCCCTTCTACAAGTCTGTTTGGATGATGCGCAACAT
genomic: ACTGCAAAGCTTTTGAGAGAGGATTATCTTGCTCAAAATGCCTTTACACCgtaagggacc ... gctgtgatagATATGACAAATTCTGCCCCTTCTACAAGTCTGTTTGGATGATGCGCAACAT
EST: gi|192324960|gb|FK015411.1|FK015411
EST:     ACTGCAAAGCTTTTGAGAGAGGATTATCTTGCTCAAAATGCCTTTACACC                         ATATGATAAATTTTGCCCCTTCTACAAGTCTGTTTGGATGATGCGCAACAT
genomic: ACTGCAAAGCTTTTGAGAGAGGATTATCTTGCTCAAAATGCCTTTACACCgtaagggacc ... gctgtgatagATATGACAAATTCTGCCCCTTCTACAAGTCTGTTTGGATGATGCGCAACAT
EST: gi|21676820|gb|BQ629171.1|BQ629171
EST:     ACTGCAAAGCTTTTGAGAGAGGATTATCTTGCTCAAAATGCCTTTACACC                         ATATGACAAATTCTGCCCCTTCTACAAGTCTGTTTGGATGATGCGCAACAT
genomic: ACTGCAAAGCTTTTGAGAGAGGATTATCTTGCTCAAAATGCCTTTACACCgtaagggacc ... gctgtgatagATATGACAAATTCTGCCCCTTCTACAAGTCTGTTTGGATGATGCGCAACAT
EST: gi|207828554|gb|GD800455.1|GD800455
EST:     ACTGCAAAGCTTTTGAGAGAGGATTATCTTGCTCAAAATGCCTTTACACC                         ATATGACAAATTCTGCCCCTTCTACAAGTCTGTTTGGATGATGCGCAACAT
genomic: ACTGCAAAGCTTTTGAGAGAGGATTATCTTGCTCAAAATGCCTTTACACCgtaagggacc ... gctgtgatagATATGACAAATTCTGCCCCTTCTACAAGTCTGTTTGGATGATGCGCAACAT
EST: gi|12691488|gb|BG157824.1|BG157824
EST:     ACTGCAAAGCTTTTGAGAGAGGATTATCTTGCTCAAAATGCCTTTACACC                         ATATGACAAATTCTGCCCCTTCTACAAGTCTGTTTGGATGATGCGCAACAT
genomic: ACTGCAAAGCTTTTGAGAGAGGATTATCTTGCTCAAAATGCCTTTACACCgtaagggacc ... gctgtgatagATATGACAAATTCTGCCCCTTCTACAAGTCTGTTTGGATGATGCGCAACAT
EST: gi|7042485|gb|AW472379.1|AW472379
EST:     ACTGCAAAGCTTTTGAGAGAGGATTATCTTGCTCAAAATGCCTTTACACC                         ATATGACAAATTCTGCCCCTTCTACAAGTCTGTTTGGATGATGCGCAACAT
genomic: ACTGCAAAGCTTTTGAGAGAGGATTATCTTGCTCAAAATGCCTTTACACCgtaagggacc ... gctgtgatagATATGACAAATTCTGCCCCTTCTACAAGTCTGTTTGGATGATGCGCAACAT
EST: gi|209722704|gb|BW657958.1|BW657958
EST:     CTTGCTCAAAATGCCTTTACACC                         ATATGACAAATTCTGCCCCTTCTACAAGTCTGTTTGGATGATGCGCAACAT
genomic: CTTGCTCAAAATGCCTTTACACCgtaagggacc ... gctgtgatagATATGACAAATTCTGCCCCTTCTACAAGTCTGTTTGGATGATGCGCAACAT
EST: gi|6951864|gb|AW423932.1|AW423932
EST:     AAAGCTTTTGAGAGAGGATTATCTTGCTCAAAATGCCTTTACACC                         ATATGACAAATTCTGCCCCTTCTACAAGTCTGTTTGGATGATGCGCAACAT
genomic: AAAGCTTTTGAGAGAGGATTATCTTGCTCAAAATGCCTTTACACCgtaagggacc ... gctgtgatagATATGACAAATTCTGCCCCTTCTACAAGTCTGTTTGGATGATGCGCAACAT
EST: gi|58023444|gb|CX710185.1|CX710185
EST:     ACTGCAAAGCTTTTGAGAGAGGATTATCTTGCTCAAAATGCCTTTACACC                         ATATGACAAATTCTGCCCCTTNTACAAGTCTGTTTGGATGATGCGCAACAT
genomic: ACTGCAAAGCTTTTGAGAGAGGATTATCTTGCTCAAAATGCCTTTACACCgtaagggacc ... gctgtgatagATATGACAAATTCTGCCCCTTCTACAAGTCTGTTTGGATGATGCGCAACAT
EST: gi|6724341|gb|AW308740.1|AW308740
EST:     ACTGCAAAGCTTTTGAGAGAGGATTATCTTGCTCAAAATGCCTTTACACC                         ATATGACAAATTCTGCCCCTTCTACAAGTCTGTTTGGATGATGCGCAACAT
genomic: ACTGCAAAGCTTTTGAGAGAGGATTATCTTGCTCAAAATGCCTTTACACCgtaagggacc ... gctgtgatagATATGACAAATTCTGCCCCTTCTACAAGTCTGTTTGGATGATGCGCAACAT
EST: gi|31561919|gb|CD487757.1|CD487757
EST:     TATCTTGCTCAAAATGCCTTTACACC                         ATATGACAAATTCTGCCCCTTCTACAAGTCTGTTTGGATGATGCGCAACAT
genomic: TATCTTGCTCAAAATGCCTTTACACCgtaagggacc ... gctgtgatagATATGACAAATTCTGCCCCTTCTACAAGTCTGTTTGGATGATGCGCAACAT
EST: gi|192309103|gb|FG999386.1|FG999386
EST:     ACTGCAAAGCTTTTGAGAGAGGATTATCTTGCTCAAAATGCCTTTACACC                         ATATGACAAATTCTGCCCCTTCTACAAGTCTGTTTGGATGATGCGCAACAT
genomic: ACTGCAAAGCTTTTGAGAGAGGATTATCTTGCTCAAAATGCCTTTACACCgtaagggacc ... gctgtgatagATATGACAAATTCTGCCCCTTCTACAAGTCTGTTTGGATGATGCGCAACAT
EST: gi|11274141|gb|BF324509.1|BF324509
EST:     GGATTATCTTGCTCAAAATGCCTTTACACC                         ATATGACAAATTCTGCCCCTTCTACAAGTCTGTTTGGATGATGCGCAACAT
genomic: GGATTATCTTGCTCAAAATGCCTTTACACCgtaagggacc ... gctgtgatagATATGACAAATTCTGCCCCTTCTACAAGTCTGTTTGGATGATGCGCAACAT
EST: gi|298166861|gb|HO010300.1|HO010300
EST:     ACTGCAAAGCTTTTGAGAGAGGATTATCTTGCTCAAAATGCCTTTACACC                         ATATGACAAATTCTGCCCCTTCTACAAGTCTGTTTGGATGATGCGCAACAT
genomic: ACTGCAAAGCTTTTGAGAGAGGATTATCTTGCTCAAAATGCCTTTACACCgtaagggacc ... gctgtgatagATATGACAAATTCTGCCCCTTCTACAAGTCTGTTTGGATGATGCGCAACAT
EST: gi|193417781|gb|FK383375.1|FK383375
EST:     AATGCCTTTACACC                         T
genomic: AATGCCTTTACACCgtaagggacc ... gctgtgatag-
EST: gi|193417781|gb|FK383375.1|FK383375
EST:     AATGCCTTTACACC                         T
genomic: AATGCCTTTACACCgtaagggacc ... gctgtgatag-
EST: gi|26268400|gb|CA819463.1|CA819463
EST:     ACTGCAAAGCTTTTGAGAGAGGATTATCTTGCTCAAAATGCCTTTACACC                         ATATGACAAATTCTGCCCCTTCTACAAGTCTGTTTGGATGATGCGCAACAT
genomic: ACTGCAAAGCTTTTGAGAGAGGATTATCTTGCTCAAAATGCCTTTACACCgtaagggacc ... gctgtgatagATATGACAAATTCTGCCCCTTCTACAAGTCTGTTTGGATGATGCGCAACAT
EST: gi|57575633|gb|CX548608.1|CX548608
EST:     ACTGCAAAGCTTTTGAGAGAGGATTATCTTGCTCAAAATGCCTTTACACC                         ATATGACAAATTCTGCCCCTTCTACAAGTCTGTTTGGATGATGCGCAACAT
genomic: ACTGCAAAGCTTTTGAGAGAGGATTATCTTGCTCAAAATGCCTTTACACCgtaagggacc ... gctgtgatagATATGACAAATTCTGCCCCTTCTACAAGTCTGTTTGGATGATGCGCAACAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atattattgtttttatttgttcttatgttggtacctttttgtgtggctgtgatagATATGACAAATTCTGCCCCTTCTACAAGTCTGTTTGGATGATGCGCAACATTATCCATTTCTACAATTTGGCAAATCAG
     attgtttttatttgtt  TA-rich tract