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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttttgtagttccaagagaccattcttattggactcgatttgacttctgtgagtacttacgtgttctttcacttgctttgttgagtagTTGTCAGGACTCTCACTGGTCACAGGTCCAATTGCATCTCAGTGGATTTCCACCCTTTTGGTGAGTTTTTTGCGTCAGGCTCACTAGACACAAATCTTAA

Basic information

species Arabidopsis thaliana
transcript AT5G23430.2
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G23430.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: LOC_Os04g58130.1 (Oryza sativa), 3'ss of exon 3
------------------------------------------------------gtaagttttgtagttccaagagaccattcttattggactcgatttgacttc--tgtgagtacttacgtgttcttt------cacttgctttgttgagta----gTTGTCAGGACTCTCACTGGTCACAGGTCCAATTGCATCTCAGTGGATTTCCACCCTTTTGGTGAGTTTTTTGCGTCAGGCTCACTAGACACAAATCTTAA
                                                      ||   | | ||   | |||  |    ||  ||| | |       ||||| |  | || || ||  | | ||   |      |||||| ||||||  |||    |||||| | || || ||||| || ||||| || ||||| ||||| |||||||| |||||||| || || ||||| || || ||||| ||||||||||| ||
gtacgtgaatgcgaatgccttttgctgttgcatatatacctgaccacattccttgtctatat-gtgaatgcaaatgctttttactatcgcatgtatactgactacattctgtgtcctatcttatttgattagcaccacttgatttgttttgtatgcagTTGTCCGCACGCTTACTGGACATAGGTCAAACTGCATGTCAGTTGATTTCCATCCTTTTGGAGAATTCTTTGCCTCGGGGTCACTGGACACAAATCTGAA

upper sequence: AT5G23430.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA19G00890.1 (Glycine max), 3'ss of exon 4
-------------------------------------------------gtaagttttgta-gttccaagagaccattcttattggactcgatttgacttctgtgagtacttacgtgttctttcacttgctttgttgagtagTTGTCAGGACTCTCACTGGTCACAGGTCCAATTGCATCTCAGTGGATTTCCACCCTTTTGGTGAGTTTTTTGCGTCAGGCTCACTAGACACAAATCTTAA
                                                   ||| |||| |   ||  | | |   || | | |    ||    | | || | | | |  | |    ||   |  ||   ||| ||  ||||||||  | ||||| |||||||| ||||||||||| |  |||||||| ||||| |||||||| ||||| ||||| || || ||  ||||||| ||||||||
gtacgcggttgcttgccatttcttttaatggttttaaaacaccaatgaaaaaagatttgaatagtctcacaaatttttttcagtattttcaccataaattttttaaat--tgagtctttgacttgctatgtttctttggtagTTGTTCGTACTCTTACTGGTCATAGGTCCAATTGTACATCAGTGGACTTCCATCCTTTTGGAGAGTTCTTTGCATCTGGTTCTTTAGACACTAATCTTAA

upper sequence: AT5G23430.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: Vv10s0071g01150.t01 (Vitis vinifera), 3'ss of exon 3
---------gtaagttttgtagttccaagagaccattcttattggactcgatttgac-ttctgtgagtacttacgtgttctttc-----acttgctttgttgagtagTTGTCAGGACTCTCACTGGTCACAGGTCCAATTGCATCTCAGTGGATTTCCACCCTTTTGGTGAGTTTTTTGCGTCAGGCTCACTAGACACAAATCTTAA
          ||   ||||    |  || | |  | |  | ||    | ||| ||   ||       ||  ||    || | |      |  || ||| |||  |||||||  | || || ||||| ||||| || |||||||| || ||||| ||||| || ||||| ||||| ||||| || ||||| || ||||||||||||||
gtatgcacattagactttgggtgtttaatatatgaattctgttct-tttgatatgttgttaaactgatatctagagattttctgttgtaatgtggttttttgtatagTTGTTCGCACGCTTACTGGCCACAGATCAAATTGCATATCTGTGGACTTCCATCCATTTGGGGAGTTCTTTGCATCTGGCTCTCTGGACACAAATCTTAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctcgatttgacttctgtgagtacttacgtgttctttcacttgctttgttgagtagTTGTCAGGACTCTCACTGGTCACAGGTCCAATTGCATCTCAGTGGATTTCCACCCTTTTGGTGAGTTTTTTGCGTCAGGCTCACTAGACACAAATCTTAA
                    tacttac  putative branch site (score: 1)
                              ttctttcacttgcttt  putative PPT