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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATGAACGCGAGCTTGGCTTGGACCATCCGGATACCATGAAGAGCTATGGAGATCTGGCTGTCTTTTACTACCGGTTGCAGCATACCGAACTAGCTCTGAAgtacgttcttttgtgattctttttaattgatgaccttaaccttctttacag

Basic information

species Selaginella moellendorffii
transcript EFJ26424
intron # 18
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: EFJ26734 (Selaginella moellendorffii), 5'ss of exon 18
lower sequence: LOC_Os07g23990.2 (Oryza sativa), 5'ss of exon 17
ATGAACGCGAGCTTGGCTTGGACCATCCGGATACCATGAAGAGCTATGGAGATCTGGCTGTCTTTTACTACCGGTTGCAGCATACCGAACTAGCTCTGAAgtacgttc-ttttgtgattctttttaattgatgaccttaaccttctttacag------------------------------------------------
||||  | || |||||  | || || || ||||| |||||||| ||||||||||| ||||| || |||||||| || || ||||| ||||| ||||| ||||| |||   ||| || || |||||   ||| || | |     | |  | |                                                 
ATGAGAGGGAACTTGGGCTAGATCACCCTGATACAATGAAGAGTTATGGAGATCTTGCTGTGTTCTACTACCGTTTACAACATACAGAACTGGCTCTAAAgtaagttgactttatgtttttttttccctgaagatcatctatctatccataagaatgaacatgactatagttcccctttgaggtcttagttgaagtaata

upper sequence: EFJ26734 (Selaginella moellendorffii), 5'ss of exon 18
lower sequence: GRMZM2G318635_T01 (Zea mays), 5'ss of exon 18
ATGAACGCGAGCTTGGCTTGGACCATCCGGATACCATGAAGAGCTATGGAGATCTGGCTGTCTTTTACTACCGGTTGCAGCATACCGAACTAGCTCTGAAgtacgttc----ttttgtgattctttttaattgatgaccttaaccttctttacag--------------------------------------------------------------------------------------------
||||  | || |||||  | ||||| || ||||| ||||| |||||||||||||| ||||| || ||||| ||  |||| ||||| ||||||||  | ||||| ||||    |  | |  ||    | |  || | |   |   |  |  || ||                                                                                            
ATGAGAGGGAACTTGGACTTGACCACCCAGATACAATGAAAAGCTATGGAGATCTTGCTGTTTTCTACTATCGCCTGCAACATACAGAACTAGCATTAAAgtaagttcagagtcatctacttaagctgacatggtaaaaatggacgacactatagttttatttcttcccacttacctgtggagcttgtttcatttaccgttttcatgtttgaactactttatttatgttctgactgttatatttcag

upper sequence: EFJ26734 (Selaginella moellendorffii), 5'ss of exon 18
lower sequence: GLYMA16G02770.1 (Glycine max), 5'ss of exon 19
ATGAACGCGAGCTTGGCTTGGACCATCCGGATACCATGAAGAGCTATGGAGATCTGGCTGTCTTTTACTACCGGTTGCAGCATACCGAACTAGCTCTGAAgtacgtt---cttttgtgattctttttaattgatgaccttaacc--ttctttacag--------------------------------------------
| ||  | ||| | ||  |||| ||||| |||||||||||||||||||| ||||| ||||| || || ||| |  | || || || || || ||||||||||| |||   || |||||     |  | ||  || |  ||       | |||| ||                                            
ACGAGAGGGAGTTAGGTCTGGATCATCCTGATACCATGAAGAGCTATGGGGATCTTGCTGTTTTCTATTACAGACTTCAACACACAGAGCTGGCTCTGAAgtatgttttgctcttgtgcaatatagtgatgtataatttttcttgagtttttaaagtttaatttggtttttgaattaatataatacttgcttaattgtta

upper sequence: EFJ26734 (Selaginella moellendorffii), 5'ss of exon 18
lower sequence: GLYMA07G06160.1 (Glycine max), 5'ss of exon 19
ATGAACGCGAGCTTGGCTTGGACCATCCGGATACCATGAAGAGCTATGGAGATCTGGCTGTCTTTTACTACCGGTTGCAGCATACCGAACTAGCTCTGAAgtacgtt---cttttgtgattctttttaattgatgacctt--aaccttctttacag--------------------------------------------
| ||  | ||| | ||  |||| ||||| |||||||||||||||||||| ||||| ||||| || || ||| |  | || || ||||| || ||||||||||| |||   || |||||     |  | ||   | || ||  |    | |||| ||                                            
ACGAGAGAGAGTTAGGTCTGGATCATCCTGATACCATGAAGAGCTATGGGGATCTTGCTGTTTTCTATTACAGACTTCAACACACCGAGCTGGCTCTGAAgtatgttttgctcttgtgcaatatagtgatgtctaacttttcatgagtttttaaagtttaatttagtttttgaattaatacaatacttgcttaattttta

upper sequence: EFJ26734 (Selaginella moellendorffii), 5'ss of exon 18
lower sequence: GLYMA06G30000.1 (Glycine max), 5'ss of exon 16
ATGAACGCGAGCTTGGCTTGGACCATCCGGATACCATGAAGAGCTATGGAGATCTGGCTGTCTTTTACTACCGGTTGCAGCATACCGAACTAGCTCTGAAgtacgttcttttgtgattctttttaattgatgaccttaaccttctttacag--------------------------------------------------
||||| | ||||||||  |||||||||| ||||| ||||| || ||||||||||| ||||| || || || ||  | || ||||| ||  | ||| | ||||| | |    | |  ||  | | ||||| |   ||       ||   |||                                                  
ATGAAAGAGAGCTTGGACTGGACCATCCTGATACGATGAAAAGTTATGGAGATCTTGCTGTTTTCTATTATCGACTCCAACATACAGAGTTGGCTTTAAAgtatgcttccatatc-ttaatataaattggttgactgttatacctcggcagtggctttaaagtatgcttccatatatcatattccttagataaattgtttg

RNA-Seq data


 ATGC   Supported by RNA-Seq exonic block that spans over the splice site

 atgs   Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.


Found data for 1 RNA-Seqlibrary.


Block sizes: 25 (upstream exon), 34 (downstream exon)
Score: 13

ATGAACGCGAGCTTGGCTTGGACCATCCGGATACCATGAAGAGCTATGGAGATCTGGCTGTCTTTTACTACCGGTTGCAGCATACCGAACTAGCTCTGAAgtacgttctt ... ttctttacagGTATGTCAACCGGGCCTTATACCTCCTTCACCTGATCTGTGGACCCTCCCACCCGAACACAGCAGCTACATATATCAACGTTGCAATGATGGAAGAAGGT




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