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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtttgctctatcttattcttgaatatttggacattgaagttttctttgttaagttgcttctaattgaatgttgaaacaacctttcttgtacggctctgtttgcactcttaacttttgcttttccgggcacttttaatatttaccgtataatgactgtgtagcctgctgtactcatattgtcctcatatatgcagAATAATCTCCATGAACTGTGGGCTCTTCTAAATTTTCTTCTGCCTGAGATTTTTAGTTCAGCAGAGACTTTTGATGAATGGTTTCAAATTTCTGGTGAGA

Basic information

species Arabidopsis thaliana
transcript AT3G06400.3
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G06400.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: LOC_Os01g27040.1 (Oryza sativa), 3'ss of exon 7
gtgtttgctctatcttattcttgaatatttggacattgaagttttctttgttaagttgcttctaattgaatgttgaaacaacctttcttgtacggctctgtttgcactcttaacttttgcttttccgggcacttttaatatttaccgtataatgactgtg-tagcctgctgtactcatattgtcctcatatatgcagAATAATCTCCATGAACTGTGGGCTCTTCTAAATTTTCTTCTGCCTGAGATTTTTAGTTCAGCAGAGACTTTTGATGAATGGTTTCAAATTTCTGGTGAGA
                                                   || ||  |  ||   ||  || |       | ||| |||   | || |        ||  |    ||   ||      ||   | ||   ||    |    | | | || ||    | ||     ||  |    | || | ||||||||||||||||||| || ||| |||| || || ||  |  ||||||| || ||||| || || || || ||||||||||||||||||||||||||||| |
--------------------------------------------------gtaggtctcccctggctg--tgct-------ctttttttg---gactgtagccatggtcaaagtaattatgttggtttacatcctcaagcatttttttgcttttattctgataattcgttgatgctatgat----tgatgtttgcagAATAATCTCCATGAGCTTTGGTCTCTCCTCAACTTCTTGTTGCCTGAAATATTTAGCTCTGCTGAAACATTTGATGAATGGTTTCAAATTTCTGGTGAAA

upper sequence: AT3G06400.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: 13113.m00246 (Oryza sativa), 3'ss of exon 7
gtgtttgctctatcttattcttgaatatttggacattgaagttttctttgttaagttgcttctaattgaatgttgaaacaacctttcttgtacggctctgtttgcactcttaacttttgcttttccgggcacttttaatatttaccgtataatgactgtgtagcctgctgtactcatattgtcctcatatatgcagAATAATCTCCATGAACTGTGGGCTCTTCTAAATTTTCTTCTGCCTGAGATTTTTAGTTCAGCAGAGACTTTTGATGAATGGTTTCAAATTTCTGGTGAGA
                                                   || ||  |  ||   ||  || |       | ||| ||| || |      | |      ||| || || |  |       | |  |  ||||      |  |       ||    | ||     ||  |    | || | ||||||||||||||||||| || ||| |||| || || ||  |  ||||||| || ||||| || || || || ||||||||||||||||||||||||||||| |
--------------------------------------------------gtaggtctcccctggctg--tgct-------ctttttttggactgtagccatggtcaaagtaa-ttatgttggtttacattcctcaagcatttttttgcttttattctgataattcgttgatgctatgat----tgatgtttgcagAATAATCTCCATGAGCTTTGGTCTCTCCTCAACTTCTTGTTGCCTGAAATATTTAGCTCTGCTGAAACATTTGATGAATGGTTTCAAATTTCTGGTGAAA

upper sequence: AT3G06400.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: LOC_Os05g05780.1 (Oryza sativa), 3'ss of exon 7
gtgtttgctctatcttattcttgaatatttggacattgaagttttctttgttaagttgcttctaattgaatgttgaaacaacctttcttgtacggctctgtttgcactcttaacttttgcttttccgggcactt-ttaatatttaccgtataatgactgtgtagcctgctgtactcatattgtcctcatatatgcagAATAATCTCCATGAACTGTGGGCTCTTCTAAATTTTCTTCTGCCTGAGATTTTTAGTTCAGCAGAGACTTTTGATGAATGGTTTCAAATTTCTGGTGAGA
                              | |  ||        ||| || |  ||  |||||  |   |    |  |||  ||| |  |     |||  |   | | |     |||||||       || || || |  || |   |||    | | |     |  ||| |||   ||| | ||       |||||||||||| |||||||| ||| ||||||| || ||  |  ||||||| || ||||| || || |||||||||||||| ||||| ||||| || || || |
------------------------------gtatgttagcaccacctt-gtcacattaattctacattgctacctatgcaaattttgtactct--ttctaatctaattatggtaatttgcttcagtatacatttcttcaagttcaagttatgtccaattttatcaccactg-acttg-attatgct-------gcagAATAATCTTCATGAACTTTGGTCTCTTCTCAACTTCTTGTTGCCTGAAATATTTAGCTCTGCTGAGACTTTTGATGATTGGTTCCAAATCTCAGGGGAAA

upper sequence: AT3G06400.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GRMZM2G010085_T01 (Zea mays), 3'ss of exon 4
gtgtttgctctatcttattcttgaatatttggacattgaagttttctttgttaagttgcttctaattgaatgttgaaacaacctttcttgtacggctctgtttgcactcttaacttttgcttttccgggcacttttaatatttaccgtataatgactgtgtagcctgctgtactcatattgtcctcatatatgcagAATAATCTCCATGAACTGTGGGCTCTTCTAAATTTTCTTCTGCCTGAGATTTTTAGTTCAGCAGAGACTTTTGATGAATGGTTTCAAATTTCTGGTGAGA
                                      | | ||   |||  |   |  || |  ||  ||  ||     ||||       | |  |  | |  |||| | |      |  ||    | ||  |||| | |||    ||   |||   |  || ||| | | ||  ||       |||    |||||||||||||||||| || |||||||| || |||||  | || ||||| || ||||| || || ||||| |||||||||||||||||||| ||||| || |
------------------------------------gtaggcttctcttgcca--ctatttgtttttatataatgcgtgcacctggaaca-atgatttaggtaccact-tcagtaaccgtgttgt--gccatatttattttttggtttaatctgatcct--agtctgatttgctgcta-------catg---gcagAATAATCTCCATGAGCTCTGGGCTCTCCTCAATTTCTTGCTACCTGAAATATTTAGCTCTGCGGAGACCTTTGATGAATGGTTTCAAATATCTGGGGAAA

upper sequence: AT3G06400.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: AC235535.1_FGT001 (Zea mays), 3'ss of exon 7
gtgtttgctctatcttattcttgaatatttggacattgaagttttctttgttaagttgcttcta--attgaatgttgaaacaacctttcttgtacggctctgtttgcactcttaa-cttttgcttttccgggcacttttaatatttaccgtataatgactgtgtagcctgctgtactcatattgtcctcatatatgcagAATAATCTCCATGAACTGTGGGCTCTTCTAAATTTTCTTCTGCCTGAGATTTTTAGTTCAGCAGAGACTTTTGATGAATGGTTTCAAATTTCTGGTGAGA
                                                   || | | || | |  ||||  ||||  |       | |    |   |  || |||    |  |  |  |  |  |   | |   | ||| | |||    ||   ||| | |  || | | | | ||  ||       |||    |||||||||||||||||| || |||||||| || |||||  | || ||||| || ||||| || || || || |||||||||||||||||||||||||| || |
--------------------------------------------------gtaggcttctgccagtattgtttgttatatagtgtgtgcacccagaacaatgattgagtaccgattcagtaaccgtgttgtgtcatattagtttttggtttaatctgattct--agtccggtttgctgcta-------catg---gcagAATAATCTCCATGAGCTCTGGGCTCTCCTCAATTTCTTGCTCCCTGAAATATTTAGCTCTGCGGAAACCTTTGATGAATGGTTTCAAATTTCTGGGGAAA

upper sequence: AT3G06400.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA13G28720.1 (Glycine max), 3'ss of exon 7
gtgtttgctctatcttattcttgaatatttggacattgaagttttctttgttaagttgcttctaattgaatgttgaaacaacctttcttgtacggctctgtttgcactcttaacttttgcttttccgggcacttttaatatttaccgtataatgactgtgtagcctgctgtactcatattgtcctcatatatgcagAATAATCTCCATGAACTGTGGGCTCTTCTAAATTTTCTTCTGCCTGAGATTTTTAGTTCAGCAGAGACTTTTGATGAATGGTTTCAAATTTCTGGTGAGA
                                                                                    | ||| |   |||   |||| | ||| |||| ||  ||||  |       ||  |||  | | |  |||   |       ||| |||     |||     |||      ||||||||||| |||||||| ||| ||||||| || ||||||||||| || ||||||||||| || || ||||||||||||||||||||||| |||||||| |
----------------------------------------------------------------------------------tatgcttttctagcttattttgaaatctgaactattatttttttg-------tttgtatgcatcctcaaatattta------ctggtgtgtat-tatctctttcaatggcacagAATAATCTTCATGAACTCTGGTCTCTTCTCAACTTTCTTCTGCCCGAAATTTTTAGTTCTGCTGAAACTTTTGATGAATGGTTTCAAATCTCTGGTGAAA

upper sequence: AT3G06400.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA07G38050.2 (Glycine max), 3'ss of exon 7
gtgtttgctctatcttattcttgaatatttggacattgaagttttctttgttaagttgcttctaattgaatgttgaaacaacctttcttgtacggctctgtttgcactcttaacttttgcttttccgggcacttttaatatttaccgtataatgactgtgtagcctgctgtactcatattgtcctcatatatgcagAATAATCTCCATGAACTGTGGGCTCTTCTAAATTTTCTTCTGCCTGAGATTTTTAGTTCAGCAGAGACTTTTGATGAATGGTTTCAAATTTCTGGTGAGA
                                                                                       ||| |   ||   |||     |||  | |||| |     ||  | |  |||| || |       |    |  |||   |  |||  |    || |  | |  | ||||||| ||||| |||||||| ||||||||||| || |||||| ||||||| || |||||||| || || ||||||||||||||||||||||| |||||||| |
---------------------------------------------------------------------------------------ttgaa-atctgaatttttttccttttcatttgttgcataggtaagtgataatgttaat------acacttaagtaat-taatgtgatttgtttcttttgacgt-tgcagAACAATCTTCATGAACTCTGGGCTCTTCTCAACTTTCTTTTGCCTGAAATATTTAGTTCTGCTGAAACTTTTGATGAATGGTTTCAAATCTCTGGTGAAA

upper sequence: AT3G06400.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA15G10370.1 (Glycine max), 3'ss of exon 7
gtgtttgctctatcttattcttgaatatttggacattgaagttttctttgttaagttgcttctaattgaatgttgaaacaacctttcttgtacggctctgtttgcactcttaacttttgcttttccgggcacttttaatatttaccgtataatgactgtgtagcctgctgtactcatattgtcctcatatatgcagAATAATCTCCATGAACTGTGGGCTCTTCTAAATTTTCTTCTGCCTGAGATTTTTAGTTCAGCAGAGACTTTTGATGAATGGTTTCAAATTTCTGGTGAGA
                                                                                    | ||| |    ||   |||| | |||||| | ||  ||||        | ||  |||  | | |  |||   |       ||  ||| ||  |||     | ||     |||||||| || |||||||| ||| ||||||| || ||||||||||| || ||||||||||| || || ||||||||||||||||||||||| |||||||| |
------------------------------------------------------------------------------------tgcttttctaccttgttttgaaatcttaattattttttttgt-----ttgtttgtatgcatcctcaaatattta------ctagtgt-ctattatcacttttattggcacagAATAACCTTCATGAACTCTGGTCTCTTCTCAACTTTCTTCTGCCCGAAATTTTTAGTTCTGCTGAAACTTTTGATGAATGGTTTCAAATCTCTGGTGAAA

upper sequence: AT3G06400.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA17G02640.1 (Glycine max), 3'ss of exon 7
gtgtttgctctatcttattcttgaatatttggacattgaagttttctttgttaagttgcttctaattgaatgttgaaacaacctttcttgtacggctctgtttgcactcttaacttttgcttttccgggcacttttaatatttaccgtataatgactgtgtagcctgctgtactcatattgtcctcatatatgcagAATAATCTCCATGAACTGTGGGCTCTTCTAAATTTTCTTCTGCCTGAGATTTTTAGTTCAGCAGAGACTTTTGATGAATGGTTTCAAATTTCTGGTGAGA
                                                                                     |    |  |  |||  || | || | |    |||| | |    ||  |   ||| || |       |    |  |||   |  |||  |    || |  | |||| ||||||| ||||| || ||||| ||||||||||| || |||||| ||||||| || |||||||| || || ||||||||||||||||||||||| |||||||| |
-------------------------------------------------------------------------------------tgaaatctgaatcttatttccctttcattggttgcatgtgtaagcgat---aatgttaat------acacttaagtaat-taatgtgatttgtttcttttgatat-tgcagAACAATCTTCACGAACTCTGGGCTCTTCTCAACTTTCTTTTGCCTGAAATATTTAGTTCTGCTGAAACTTTTGATGAATGGTTTCAAATCTCTGGTGAAA

upper sequence: AT3G06400.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv05s0020g01780.t01 (Vitis vinifera), 3'ss of exon 7
gtgtttgctctatcttattcttgaatatttggacattgaagttttctttgttaagttgcttctaattgaatgttgaaacaacctttcttgtacggctctgtttgcactctta-acttttgcttttccgggcacttttaatatttaccgtataatgactgtgtagcctgctgtactcatattgtcctca--tatatgcagAATAATCTCCATGAACTGTGGGCTCTTCTAAATTTTCTTCTGCCTGAGATTTTTAGTTCAGCAGAGACTTTTGATGAATGGTTTCAAATTTCTGGTGAGA
                                                                                               |||| | |  |  |  | ||| ||  ||  |    || |   ||||        || |  |  ||||||| ||    |  | |  | || |    ||| ||||||| ||||| |||||||| ||| ||||||| || ||||| ||||| ||||| |||| |||||| |||||||||||||||||||| ||||||||||| || |
----------------------------------------------------------------------------------------------actctttatatatacacatactcttatttgcctatccaataaaaataa-----aaatgaaaatggtgtagcatgtgacatccttgctatcttttgctatgtgcagAACAATCTTCATGAACTATGGTCTCTTCTCAACTTTCTACTGCCCGAGATATTTAATTCAGCTGAGACTTTTGATGAATGGTTCCAAATTTCTGGAGATA

upper sequence: AT3G06400.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: EFJ15818 (Selaginella moellendorffii), 3'ss of exon 6
gtgtttgctctatcttattcttgaatatttggacattgaagttttctttgttaagttgcttctaattgaatgttgaaacaacctttcttgtacggctctgtttgcactcttaacttttgcttttccgggcacttttaatatttaccgtataatgactgtgtagcctgctgtactcatattgtcctcatatatgcagAATAATCTCCATGAACTGTGGGCTCTTCTAAATTTTCTTCTGCCTGAGATTTTTAGTTCAGCAGAGACTTTTGATGAATGGTTTCAAATTTCTGGTGAGA
                                                                                                                                              ||   || || |  | |  |||      || |   | ||  || ||  |  ||||| ||||| || ||  | ||||||||||| || ||||| ||||| |||||||| || || || || || || || |||||||||||||| ||||| || |
---------------------------------------------------------------------------------------------------------------------------------------------gtattttaaaaggtttcttaagctgaacctaatt-cactgaactgattga--cagAACAATCTACACGAGTTATGGGCTCTTCTTAACTTTCTGCTGCCGGAGATTTTCAGCTCTGCTGAAACATTCGACGAATGGTTTCAAATATCTGGCGAAA

upper sequence: AT3G06400.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: EFJ32950 (Selaginella moellendorffii), 3'ss of exon 6
gtgtttgctctatcttattcttgaatatttggacattgaagttttctttgttaagttgcttctaattgaatgttgaaacaacctttcttgtacggctctgtttgcactcttaacttttgcttttccgggcacttttaatatttaccgtataatgactgtgtagcctgctgtactcatattgtcctcatatatgcagAATAATCTCCATGAACTGTGGGCTCTTCTAAATTTTCTTCTGCCTGAGATTTTTAGTTCAGCAGAGACTTTTGATGAATGGTTTCAAATTTCTGGTGAGA
                                                                                                                                              ||   || || |  | |  |||      || |   | ||  |  ||  |  ||||| ||||| || ||  | ||||||||||| || ||||| ||||| |||||||| || || || || || || || |||||||||||||| ||||| || |
---------------------------------------------------------------------------------------------------------------------------------------------gtattttaaaaggtttcttaagctgaacctaatt-cactgaaccgattga--cagAACAATCTACACGAGTTATGGGCTCTTCTTAACTTTCTGCTGCCGGAGATTTTCAGCTCTGCTGAAACATTCGACGAATGGTTTCAAATATCTGGCGAAA

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|116481378|gb|EG523970.1|EG523970
EST:     GACTTTTTAGCACCAATTATCGGCTTCTTATCACGGGGACCCCCCTTCAG                         AATAATCTCCATGAACTGTGGGCTCTTCTAAATTTTCTTCTGCCTGAGATT
genomic: GACTTTTTAGCACCAATTATCGGCTTCTTATCACGGGGACCCCCCTTCAGgtgtttgctc ... atatatgcagAATAATCTCCATGAACTGTGGGCTCTTCTAAATTTTCTTCTGCCTGAGATT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttaccgtataatgactgtgtagcctgctgtactcatattgtcctcatatatgcagAATAATCTCCATGAACTGTGGGCTCTTCTAAATTTTCTTCTGCCTGAGATTTTTAGTTCAGCAGAGACTTTTGATGAATGGTTTCAAATTTCTGGTGAGA
                                        tcctcat  CT-rich tract
      tataatga  TA-rich tract