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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttcttttcatatttttagtagccaatgttgagcaatagccaatgtgagcaaaagcctgatttgagtttccttatgtaaaatgtgctttgtgtatgtgtagCTCGAGGACGAGAGCAGAGCAATCACTAGTGAGATGGGCAACACCGCAGCTTCACGATATAGATGCTTTGTCTAAAATGGTTGATCCTTCTCTTAATGGC

Basic information

species Arabidopsis thaliana
transcript AT4G22130.2
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G22130.2 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA09G00970.1 (Glycine max), 3'ss of exon 14
-----gtttcttttcatatttttagtagccaatgttgagcaat---------agccaatgtgagcaaaagcctgatttgagt--ttccttatgtaaaat-gtgctttgtgtatgtgtagCTCGAGGACGAGAGCAGAGCAATCACTAGTGAGATGGGCAACACCGCAGCTTCACGATATAGATGCTTTGTCTAAAATGGTTGATCCTTCTCTTAATGGC
       | |  | | |  | | |  |    ||||  | || |         | ||    | |  |     ||  | ||  |   | ||||  |  | | ||  ||| || | || ||| ||  ||    || ||||||| ||||| ||||| ||||| ||||| || || || ||||||||||| ||| | ||||||||||||||| || | || |||
gtgagcctaccatacttgatgtaaagaaatcatgtccatcacttaaatgtttatccttcattattatctttcttttctgtatggcttcttacattcatttgtaatttttgcaagtttagTTCACGGGTTCGATCAGAGCAGTCACTTGTGAGGTGGGCTACACCACAACTCCATGATATAGATGCCTTGGCCAAAATGGTTGATCCTACTTTGAACGGC

upper sequence: AT4G22130.2 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA15G11820.1 (Glycine max), 3'ss of exon 14
----gtttctttt-cat-atttttagtagcca--------atgttgagcaatagccaatgtgagcaaaagcctgatttgagt--ttccttatgtaaaat-gtgctttgtgtatgtgtagCTCGAGGACGAGAGCAGAGCAATCACTAGTGAGATGGGCAACACCGCAGCTTCACGATATAGATGCTTTGTCTAAAATGGTTGATCCTTCTCTTAATGGC
    |  | |  | ||| || |  ||||  ||        |  || |    || ||    | |  |     ||  | ||  |   | ||||  |  | | ||  ||| || | || ||| | | ||    || | ||||| ||||| ||||| ||||| ||||| || || || ||||||||||| ||| | ||||||||||||||| || | || |||
gtgagcctatcgtacatgatgtaaagtaatcatgtccatcactttaatgtttacccttcattattatctttcttttctgtatggcttcttacattcatttgtaatttttgcaagtttagTTTGCGGGTTCGATCGGAGCAGTCACTTGTGAGGTGGGCTACACCCCAACTCCATGATATAGATGCCTTGGCCAAAATGGTTGATCCTACTTTGAACGGC

upper sequence: AT4G22130.2 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: Vv10s0116g00100.t01 (Vitis vinifera), 3'ss of exon 14
--------------------------gtttcttttcatatttttagtagccaatgttgagcaatagccaatgtg--agcaaaagcctgatttgagtttccttatgtaaaatgtgctttgtgtatgtgtagCTCGAGGACGAGAGCAGAGCAATCACTAGTGAGATGGGCAACACCGCAGCTTCACGATATAGATGCTTTGTCTAAAATGGTTGATCCTTCTCTTAATGGC
                               ||||  | || ||   |   | | |  |||| |    ||| |     ||   |  || ||  |   | || || |    | |  |||||||   | ||| || ||   |||| |||| || ||||| ||||||||||| || || || ||||| |||||||||||  || | ||||||||||||||||| || ||||||
gtagaacatgtgctacattgctgaacacccatttttgtgttcttg--aaatattttatagcattctttaatctcttgacattggtttgtttctatggttctcatct----tcttttttgtgt---tttagTTCAAGAGTGAGATCAGAACAGTCACTTGTGAGATGGGCTACTCCCCAACTTCATGATATAGATGCCCTGGCAAAAATGGTTGATCCTTCCCTAAATGGC

upper sequence: AT4G22130.2 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: EFJ34030 (Selaginella moellendorffii), 3'ss of exon 4
gtttcttttcatatttttagtagccaatgttgagcaatagccaatgtgagcaaaagcctgatttgagtttccttatgtaaaatgtgctttgtgtatgtgtagCTCGAGGACGAGAGCAGAGCAATCACTAGTGAGATGGGCAACACCGCAGCTTCACGATATAGATGCTTTGTCTAAAATGGTTGATCCTTCTCTTAATGGC
                                 | ||       |       || |    ||    ||| | |||  ||||  |   ||      | |  || || ||  || |  | ||||| || || ||||||||||| ||||| || || |||||||| |||||  ||||||||||||| || ||| |  | || |||
---------------------------------gtaaggtttcctagttttcaaggttatat----gttccattagctaaagaggtgttc-----tattcagTTCAAGAGCGCGCTCGGAGCAGTCGCTGGTGAGATGGGCCACACCTCAACTCCACGATATTGATGCGCTGTCTAAAATGGTGGACCCTGCGTTGAAAGGC

upper sequence: AT4G22130.2 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: EFJ37538 (Selaginella moellendorffii), 3'ss of exon 13
gtttcttttcatatttttagtagccaatgttgagcaatagccaatgtgagcaaaagcctgatttgagtttccttatgtaaaatgtgctttgtgtatgtgtagCTCGAGGACGAGAGCAGAGCAATCACTAGTGAGATGGGCAACACCGCAGCTTCACGATATAGATGCTTTGTCTAAAATGGTTGATCCTTCTCTTAATGGC
                                 | ||       |       || |    ||    ||| | |||  ||||  |   ||      | |  || || ||  |  |  | ||||| || || ||||||||||| ||||| || || |||||||| |||||  ||||||||||||| || ||| |  | || |||
---------------------------------gtaaggtttcctagttttcaaggttatat----gttccattagctaaagaggtgttc-----tattcagTTCAAGAGCACGCTCGGAGCAGTCGCTGGTGAGATGGGCCACACCTCAACTCCACGATATTGATGCGCTGTCTAAAATGGTGGACCCTGCGTTGAAAGGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gagcaaaagcctgatttgagtttccttatgtaaaatgtgctttgtgtatgtgtagCTCGAGGACGAGAGCAGAGCAATCACTAGTGAGATGGGCAACACCGCAGCTTCACGATATAGATGCTTTGTCTAAAATGGTTGATCCTTCTCTTAATGGC
        gcctgat  putative branch site (score: 4)
                         ttatgtaaaat  TA-rich tract