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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatagtaatttactgaaatttaaactgataatgtcgaaagctacatctaactgaaagtttcttttggccaagtattttgcctacgtttttactcagcgagcggatcattatctcattggtgttaaattttttgagtgtatttgcagGCAGATATTGGTCTTGCTATGGGAATAGCAGGAACAGAAGTGGCTAAGGAGAGTTCGGACATCATCATCTTGGATGACAACTTTGCTTCAGTTGTCAAG

Basic information

species Arabidopsis thaliana
transcript AT5G57110.1
intron # 26
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G57110.1 (Arabidopsis thaliana), 3'ss of exon 26
lower sequence: LOC_Os02g08010.1 (Oryza sativa), 3'ss of exon 8
gtatagtaatttactg--aaatttaaactgataatgtcgaaagctacatctaactgaaagtttcttttggccaagtattttgcctacgtttttactcagcga-gcggatcattatctcattggtgttaaattttttgagtgtatttgcagGCAGATATTGGTCTTGCTATGGGAATAGCAGGAACAGAAGTGGCTAAGGAGAGTTCGGACATCATCATCTTGGATGACAACTTTGCTTCAGTTGTCAAG
||| | ||  | | ||  || |||    |||  |  |  || | || |  |||  |    ||| |||    ||  |      |   || |  | |     || ||  ||   ||  |  ||| | |   |||  |       ||||  ||||||| ||||||||||||||||| ||   |||||||||||| ||||| || || || || || || ||  |||||||||| |||||||||||||| |||
gtaca-tacataattgggaattttgttttgaacaaataaaaggataaacataatggt---tttatttcaatcagatgaag-acaatcgatcatgcatgttgatgcacatttctaatt--ttgatctcttattcctccta---attt--agGCAGACATTGGTCTTGCTATGGGTATCCAAGGAACAGAAGTAGCTAAAGAAAGCTCAGATATAATTATTCTGGATGACAATTTTGCTTCAGTTGTAAAG

upper sequence: AT5G57110.1 (Arabidopsis thaliana), 3'ss of exon 26
lower sequence: LOC_Os04g51610.3 (Oryza sativa), 3'ss of exon 25
gtatagtaatttactgaaatttaaactgataatgtcgaaagctacatctaactgaaagtttcttttggccaagtattttgcctacgtttttactcagcgagcggatcattatctcattggtgttaaattttttgagtgtatttgcagGCAGATATTGGTCTTGCTATGGGAATAGCAGGAACAGAAGTGGCTAAGGAGAGTTCGGACATCATCATCTTGGATGACAACTTTGCTTCAGTTGTCAAG
                                          ||  |||     || ||| | |   |    | |     |  |  ||  |  ||| | | |  |      |||   |  ||  |    |  |||   || |   |||||||||| |||||  | ||||| ||    ||||| ||||| || ||||||||||| || || ||||||||||||||||| ||||| || || || | |
---------------------------------------gtttatctctcgactaatgttccatcatgttttgaaagaaaca-atcttcatgttcaacaaccataatccagtctttcttatgcaa----tgctgaacttaat---agGCAGATATAGGTCTCTCCATGGGCATCCAGGGAACTGAAGTTGCCAAGGAGAGTTCTGATATTATCATCTTGGATGACAATTTTGCATCGGTCGTGAGG

upper sequence: AT5G57110.1 (Arabidopsis thaliana), 3'ss of exon 26
lower sequence: GRMZM2G391042_T01 (Zea mays), 3'ss of exon 25
------gtatagtaatttactgaaatttaaactgataatgtcgaaagctacatct--aactgaaagtttcttttggccaa---gtattttg--cctacgtttttactcagcgagcggatcattatctc--attggtgtt--aaattttttgagtgtatttgcagGCAGATATTGGTCTTGCTATGGGAATAGCAGGAACAGAAGTGGCTAAGGAGAGTTCGGACATCATCATCTTGGATGACAACTTTGCTTCAGTTGTCAAG
      | |  ||| | |     |||||  | | |   ||     |||  | | |   ||   || |||||  |  | ||   ||| |||   |   | | ||| |  ||       |  |  ||||    || ||  |  | |   | |||    | ||||||||||||||||||||  | ||||| ||    ||||| ||||| |||||||||||||| || || || |||||||||||||| ||||| || || || | |
gtttgtggactgtagtctctatgaatttttaattactttgaaaccagcctcgttttggacatgaactttctagttcctaatatgtaatttaaacaagcatctttccatagatgttcaagaaacatcttttgttagtacttgagaaactctgaa---acttgcagGCAGATATTGGTCTATCAATGGGGATTCAGGGAACTGAAGTTGCTAAGGAGAGTTCTGATATTATTATCTTGGATGACAATTTTGCCTCGGTCGTGAGG

upper sequence: AT5G57110.1 (Arabidopsis thaliana), 3'ss of exon 26
lower sequence: GRMZM5G893864_T01 (Zea mays), 3'ss of exon 4
gtatagtaatttactgaaatttaaactgataatgtcgaaagctacatctaactgaaagtttct-tttggccaagtattttgc----ctacgtttttactcagcgagcggatcattatctcattggtgttaa-attttttgagtgtatttgcagGCAGATATTGGTCTTGCTATGGGAATAGCAGGAACAGAAGTGGCTAAGGAGAGTTCGGACATCATCATCTTGGATGACAACTTTGCTTCAGTTGTCAAG
||| | | | ||   | | || | | |   ||||   | |   |  || |  || | ||   | | ||    | ||||| |     |  |  || ||    |     |  || |   ||  |   | |||  ||| ||      |||   |||||||||||||||||| ||||||| ||   |||||||||||| || || ||||| || ||||| || ||  |||||||||| ||| |||| ||||| |||
gtacattcaatt-tgggagttcatattttaaatgaatacaagaat-tcaacatgcatgtgattatatgaagcactatttggtaatacagcacttctaacatgttgaggtttcttccccttctcaatcttatcattattcccacttat---cagGCAGATATTGGTCTTTCTATGGGCATCCAAGGAACAGAAGTAGCCAAAGAGAGCTCAGACATAATAATTCTGGATGACAATTTTTCTTCTGTTGTGAAG

upper sequence: AT5G57110.1 (Arabidopsis thaliana), 3'ss of exon 26
lower sequence: GRMZM2G138195_T01 (Zea mays), 3'ss of exon 1
------gtatagtaatttactgaaatttaaactgataatgtcgaaagctacatctaactgaa----agtttcttttggccaagtattttgccta------cgtttttactcagcgagcggatcattatctc--attggtgttaaattttttgagtgtatttgcagGCAGATATTGGTCTTGCTATGGGAATAGCAGGAACAGAAGTGGCTAAGGAGAGTTCGGACATCATCATCTTGGATGACAACTTTGCTTCAGTTGTCAAG
      | |  ||| | |     |||||    | || |  | |||| |  ||||    || |    |  ||  |    || | ||| |    ||      | | ||| |  ||       |  |  ||||    || ||  |  |     |  |   | |||||| |||||||||||||  | ||||| ||    ||||| ||||| |||||||||||||| || || || |||||||||||||| ||||| || || || | |
gtttgtggactgtagtctctatgaattt---ttaattactttgaaaccagcatcggtttggacatgaactttctagttcctaatatgtaatttaaacaagcatctttccatagatgttcaagaaacatcttttgttagtactcgacaaactctgaa-acttgcagACAGATATTGGTCTATCAATGGGGATTCAGGGAACTGAAGTTGCTAAGGAGAGTTCTGATATTATTATCTTGGATGACAATTTTGCCTCGGTCGTGAGG

upper sequence: AT5G57110.1 (Arabidopsis thaliana), 3'ss of exon 26
lower sequence: GLYMA17G06520.1 (Glycine max), 3'ss of exon 27
gtatagtaatttactgaaatttaaactgataatgtcgaaagctacatctaactgaaagtttcttttggccaagtattttgcctacgtttttactcagcgagcggatcattatctcattggtg-ttaaattttttgagtgtatttgcagGCAGATATTGGTCTTGCTATGGGAATAGCAGGAACAGAAGTGGCTAAGGAGAGTTCGGACATCATCATCTTGGATGACAACTTTGCTTCAGTTGTCAAG
                                | |   || |||    |  |||| |  || ||| |  ||| |  | ||     ||||||  |           ||||  |    || |||  |  |||||| |||| ||      ||| |||||||||||||| ||||| ||   ||| |||||||| ||||| ||||| || || ||||| || ||||||||||| |||||||||||||| |||
------------------------------tctattagaatctattgtt--ctgacacattttttggttcaaattatgtgaactagtttttgttt----------tcatggttgtgtttgtgactctatttttggagttta------gGCCGATATTGGTCTTGCAATGGGTATCCAAGGTACAGAAGTTGCTAAAGAGAGCTCTGATATCATTATTTTGGATGACAATTTTGCTTCAGTTGTGAAG

upper sequence: AT5G57110.1 (Arabidopsis thaliana), 3'ss of exon 26
lower sequence: GLYMA13G00420.1 (Glycine max), 3'ss of exon 25
gtatagtaatttactgaaatttaaactgataatgtcgaaagctacatctaactgaaagtttcttttggccaagtattttgcctacgtttttactcagcgagcggatcattatctcattggtgttaaattttttgagtgtatttgc------agGCAGATATTGGTCTTGCTATGGGAATAGCAGGAACAGAAGTGGCTAAGGAGAGTTCGGACATCATCATCTTGGATGACAACTTTGCTTCAGTTGTCAAG
                                               |||   |||  | |  ||  | ||   |||||   |  |||   | |  |  | |   |  || | |   ||||  |   |||| ||| | |||||        |||| |||||||||||||| ||||| ||   ||| |||||||| ||||| ||||| || || ||||| || ||||||||||| |||||||||||||| |||
-----------------------------------------------ctattagaatctattgttcagacacacatttt---ttggttcaaattaggtaaactagtttttgttttcatggttgt---ttttgtgactctatttttgagtttagGCCGATATTGGTCTTGCAATGGGTATCCAAGGTACAGAAGTTGCTAAAGAGAGCTCTGATATCATTATTTTGGATGACAATTTTGCTTCAGTTGTGAAG

upper sequence: AT5G57110.1 (Arabidopsis thaliana), 3'ss of exon 26
lower sequence: GLYMA09G06890.1 (Glycine max), 3'ss of exon 24
gtatagtaatttactgaaatttaaactgataatgtcgaaagctacatctaactgaaagtttcttttggccaagtattttgcctacgtttttactcagcgagcggatcattatctcattggtgttaaattttttgagtgtatttgcagGCAGATATTGGTCTTGCTATGGGAATAGCAGGAACAGAAGTGGCTAAGGAGAGTTCGGACATCATCATCTTGGATGACAACTTTGCTTCAGTTGTCAAG
                                                    ||||   |  |||      || | |||   | |   | || | | | | |      ||||    ||  ||| |   | |     |     |  |||| ||||| |||||||| ||||| ||   ||| |||||||| || || ||||| || || ||||| || ||||||||||| |||||||||||||| |||
-----------------------------------------------aggtttgaactatcatttcaatgcaggagtttttgttctaatgtagtaaactaactagcttttattctgtttttgtaattctatacattttggaatatagGCCGATATAGGTCTTGCAATGGGTATCCAAGGTACAGAAGTTGCCAAAGAGAGCTCTGATATCATTATTTTGGATGACAATTTTGCTTCAGTTGTGAAG

upper sequence: AT5G57110.1 (Arabidopsis thaliana), 3'ss of exon 26
lower sequence: GLYMA15G18180.1 (Glycine max), 3'ss of exon 24
gtatagtaatttactgaaatttaaactgataatgtcgaaagctacatctaactgaaagttt---cttttggccaagtattt-tgcctacgtttttactcagcgagcggatcattatctcattggtgttaaattttttgagtgtatt---tgcagGCAGATATTGGTCTTGCTATGGGAATAGCAGGAACAGAAGTGGCTAAGGAGAGTTCGGACATCATCATCTTGGATGACAACTTTGCTTCAGTTGTCAAG
                                                    | || ||||   || |    | | |     ||  |  ||| | |  |||  | |      ||||    ||  |||  |||| | |   | | |    |  |||| ||||| ||||| || ||||| ||   ||| |||||||| || || ||||| || || ||||| || ||||||||||| |||||||||||||| |||
----------------------------------------------------taaaggtttgaactatcattccaatgcagatgtttttgttctaatgcagtaaactagcttttattcttttcttgt--aattctatacatttttggaatatagGCCGATATAGGTCTAGCAATGGGTATCCAAGGTACAGAAGTTGCCAAAGAGAGCTCCGATATCATTATTTTGGATGACAATTTTGCTTCAGTTGTGAAG

upper sequence: AT5G57110.1 (Arabidopsis thaliana), 3'ss of exon 26
lower sequence: Vv11s0052g00320.t01 (Vitis vinifera), 3'ss of exon 27
gtatagtaatttactgaaatttaaactgataatgtcgaaagctacatctaactgaaagtttcttttggccaagtattttgcctacgtttttactcagcgagcggatcattatctcattggtgttaaattttttgagtgtatttgcagGCAGATATTGGTCTTGCTATGGGAATAGCAGGAACAGAAGTGGCTAAGGAGAGTTCGGACATCATCATCTTGGATGACAACTTTGCTTCAGTTGTCAAG
                                         ||  |      |   | | ||||||    ||  |   |   |   | ||| | | ||       |  ||  |   ||  | ||   ||||||   || | ||  ||||||||||||||||||| ||||| ||  |||||||||| || || || ||||| || |||||||| |||||||||||||| ||||| ||||||||||||
-----------------------------------------ctcaaataggtttctaatatcttttatataaaaaacatttttttatattttccccgctc-----ttgttcgccttttttttttcttttttttttttggactt-tagGCAGATATTGGTCTTGCAATGGGCATTTCAGGAACAGAGGTTGCAAAAGAGAGCTCTGACATCATTATCTTGGATGACAATTTTGCGTCAGTTGTCAAG

upper sequence: AT5G57110.1 (Arabidopsis thaliana), 3'ss of exon 26
lower sequence: PP1S8_288V6.1 (Physcomitrella patens), 3'ss of exon 26
gtatagtaatttactgaaatttaaactgataa-tgtcgaaagctacatctaactgaaagtttcttttggccaagtattttgcctacgtttttactcagcgagcggatcattatctcattggtgttaaattttttgagtgtatttgcagGCAGATATTGGTCTTGCTATGGGAATAGCAGGAACAGAAGTGGCTAAGGAGAGTTCGGACATCATCATCTTGGATGACAACTTTGCTTCAGTTGTCAAG
                     ||||  | ||  | | || |  | | |  ||| |        |||||||    | | |     ||  ||| | |    |    | |||  |      || || || ||| || |        ||||||| || ||||||||| | ||||| ||||||||||| ||||| || || || |||||||||||||| ||| | |||||||| ||  |||| ||||| |||
--------------------gtaaaaggctacctattgatactttctttcaacgg--------ttttggcgtgatgtgtatgtcacagtttaattttctgtcgaggtcacgag---gctgatggtacattattggcac-----tgcagGCCGACATTGGTCTTTCAATGGGTATAGCAGGAACGGAAGTCGCGAAAGAAAGTTCGGACATCATTATCCTCGATGACAATTTCACTTCTGTTGTTAAG

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|86081055|gb|DR376812.1|DR376812
EST:     TTGTTGCTGTCACCGGGGATGGGACAAATGATGCTCCTGCATTGCACGAG                         GCAGATATTGGTCTTGCTATGGGAATAGCAGGAACAGAAGTGGCTAAGGAG
genomic: TTGTTGCTGTCACCGGGGATGGGACAAATGATGCTCCTGCATTGCACGAGgtatagtaat ... gtatttgcagGCAGATATTGGTCTTGCTATGGGAATAGCAGGAACAGAAGTGGCTAAGGAG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctcagcgagcggatcattatctcattggtgttaaattttttgagtgtatttgcagGCAGATATTGGTCTTGCTATGGGAATAGCAGGAACAGAAGTGGCTAAGGAGAGTTCGGACATCATCATCTTGGATGACAACTTTGCTTCAGTTGTCAAG
                              ttaaattttttgagtg  TA-rich tract