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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tctttgtttatatgttgcaatgatgcttacgagttgtctgtgtgctttatctttattctcttcttgaagagcaaactttgacatactgtgcttccctcagGTGAGAATTGCACGCATATTTAACACATATGGCCCTCGAATGTGTTTAGATGATGGCCGAGTTGTTAGCAACTTTGTTGCACAG

Basic information

species Zea mays
transcript GRMZM2G347717_T03
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G347717_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os03g17230.1 (Oryza sativa), 3'ss of exon 3
tctttgtttatatgttgcaatgatgc-ttacgagttgtc--tgtgtgctttatctttattctcttcttgaagagcaaactttgacatactgtgcttc-cctcagGTGAGAATTGCACGCATATTTAACACATATGGCCCTCGAATGTGTTTAGATGATGGCCGAGTTGTTAGCAACTTTGTTGCACAG
   ||    | |||||    | |||  ||  |     ||  ||  | ||  ||  || | |  || || ||||| ||||||    |     || ||| ||||||||||||||||| || ||||| ||||||||||||||||| ||||||||||||||||| ||||||||||||||||| || || |||
---tttaccacatgttttgtttatgtgttgagtaacatcattgcctactgaatggtt-tccatttattaaagagaaaacttgactaacaaatgtttctcctcagGTGAGAATTGCGCGAATATTCAACACATATGGCCCTCGTATGTGTTTAGATGATGGGCGAGTTGTTAGCAACTTCGTCGCTCAG

upper sequence: GRMZM2G347717_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA13G19640.1 (Glycine max), 3'ss of exon 3
tctttgtttatatgttgcaatgatgcttacgagttgtctgtgtgctttatcttta-ttctcttcttgaagagcaa---actttgacatactgtgcttccct-cagGTGAGAATTGCACGCATATTTAACACATATGGCCCTCGAATGTGTTTAGATGATGGCCGAGTTGTTAGCAACTTTGTTGCACAG
       |||   |||  ||| |  | || | |   | |        |||  | | || |     | ||  || |   |   |||  |  |||| |    |  ||||  | ||||| || || || || |||||||| || || |||||||| |||||||| || || |||||||| ||||||||||||
---aaaattagtagtt--aatcacacataagtgaaatttaaactacctatggtaaattttgcaaattaaatgctattgagactgatctggtgtgatggtttatagGTTCGTATTGCTCGAATTTTCAATACATATGGACCCCGCATGTGTTTGGATGATGGGCGTGTCGTTAGCAATTTTGTTGCACAG

upper sequence: GRMZM2G347717_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA10G05260.1 (Glycine max), 3'ss of exon 3
----tctttgtttatatgttgcaatgatgcttacgagttgtctgtgtgctttatctttattctcttcttgaagagcaaactttgacatactgtgcttccctcagGTGAGAATTGCACGCATATTTAACACATATGGCCCTCGAATGTGTTTAGATGATGGCCGAGTTGTTAGCAACTTTGTTGCACAG
        |  |||    | |  | |  |  |   |  |   | ||     |      | |  | | ||   |||     ||||   |  || | ||     ||||  | ||||| || || || ||||||||||| || || |||||||| |||||||| || ||||||||||| ||||||||||||
aaaacaaatagttaatcatagataagtggaatttaaactacttatggaaaattctgcaaattacatgttattgagaccgatttggtttgatg-gttta---tagGTTCGTATTGCTCGAATTTTCAACACATATGGACCCCGCATGTGTTTGGATGATGGGCGTGTTGTTAGCAATTTTGTTGCACAG

upper sequence: GRMZM2G347717_T01 (Zea mays), 3'ss of exon 3
lower sequence: AT3G53520.4 (Arabidopsis thaliana), 3'ss of exon 3
tctttgtttatatgttgcaatgat----gcttacgagttgtctgtgtgctttatctttattctcttcttgaagagcaaactttgacatactgtgcttccctcagGTGAGAATTGCACGCATATTTAACACATATGGCCCTCGAATGTGTTTAGATGATGGCCGAGTTGTTAGCAACTTTGTTGCACAG
   ||    || | ||| |||| |     || | ||  | | | ||| |   |||     | |    |  |||||  | || | ||    | | |     |||||| |||||||| || || || ||||||||||| ||  |||||||  | |||||||| || |||||||| ||||||||||| |||
--gtttccaatgttttggaatgtttagaactgatga-ctatttatgt-ccaaatcacggatataacttataagagtgatctctaactgcattttcaattttcagGTTAGAATTGCTCGTATTTTCAACACATATGGGCCCAGAATGTGCCTTGATGATGGGCGTGTTGTTAGTAACTTTGTTGCCCAG

upper sequence: GRMZM2G347717_T01 (Zea mays), 3'ss of exon 3
lower sequence: Vv08s0040g02710.t01 (Vitis vinifera), 3'ss of exon 4
tctttgtttatatgttgcaatgatgcttacgagttgtctgtgtgctttatctttattctcttc-ttgaagagcaaactttgacata----ctgtgcttcc----ctcagGTGAGAATTGCACGCATATTTAACACATATGGCCCTCGAATGTGTTTAGATGATGGCCGAGTTGTTAGCAACTTTGTTGCACAG
         ||  |      | ||   | | | ||  |||| |   | ||||  ||    |    || |||  | | ||||   ||    |||   || |    | |||||  | || ||||| || || || |||||||| ||||| |||||| | |||||||| || || |||||||| ||||||||||||
--------aatgggccatccttataacttctactttactgtatagat-atctccataaagtggactgtagacaatagtttggattaatcactgaattttctgttcgcagGTACGTATAGCACGGATTTTCAATACATATGGGCCTCGTATGTGTATTGATGATGGGCGTGTGGTTAGCAATTTTGTTGCACAG

upper sequence: GRMZM2G347717_T01 (Zea mays), 3'ss of exon 3
lower sequence: EFJ23020 (Selaginella moellendorffii), 3'ss of exon 3
tctttgtttatatgttgcaatgatgcttacgagttgtctgtgtgctttatctttattctcttcttgaagagcaaactttgacatactgtgcttccctcagGTGAGAATTGCACGCATATTTAACACATATGGCCCTCGAATGTGTTTAGATGATGGCCGAGTTGTTAGCAACTTTGTTGCACAG
                                   ||  |||  ||||   |  |  |    |   ||  |   ||  |||  | |  |  ||    |||||||| || || || || || ||||||||||| ||| |||||||  | || |||||||||||||| |||||||| || || |||
-----------------------------------gtaagtgaactttccttgaaagcctaac---aaaggttgacggtgatgttccatcgttta--cagGTGAGGATCGCTCGTATTTTCAACACATATGGTCCTAGAATGTGCCTGGACGATGGCCGAGTTGTCAGCAACTTCGTGGCCCAG

upper sequence: GRMZM2G347717_T01 (Zea mays), 3'ss of exon 3
lower sequence: EFJ30517 (Selaginella moellendorffii), 3'ss of exon 4
tctttgtttatatgttgcaatgatgcttacgagttgtctgtgtgctttatctttattctcttcttgaagagcaaactttgaca--tactgtgcttccctcagGTGAGAATTGCACGCATATTTAACACATATGGCCCTCGAATGTGTTTAGATGATGGCCGAGTTGTTAGCAACTTTGTTGCACAG
                                   ||  |||  ||||   |  |  |    |       |  | |  |  ||  |  |    |     |||||||| || || || || || ||||||||||| ||| |||||||  | || |||||||||||||| |||||||| || || |||
-----------------------------------gtaagtgaactttccttgaaagcctaacaaaggttgacagcgatagcaaatgttccattgtttacagGTGAGGATCGCTCGTATTTTCAACACATATGGTCCTAGAATGTGCCTGGACGATGGCCGAGTTGTCAGCAACTTCGTGGCCCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttatctttattctcttcttgaagagcaaactttgacatactgtgcttccctcagGTGAGAATTGCACGCATATTTAACACATATGGCCCTCGAATGTGTTTAGATGATGGCCGAGTTGTTAGCAACTTTGTTGCACAG
                              ctttgac  putative branch site (score: 4)
                                           tgcttccctc  putative PPT
      tttattct  TA-rich tract