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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtttatacgaagttgaatttcgtcagtcgtaggtgcagagcttacataactttctaattgcatcaacaaatggacacaagcttcggtggacttctttctactagttgaagtatcactctggttgttattttctcagtctctgtctgaattgttggatatctcatctactgaatggtttgtcttgatgatttgcagCCTGCACATGATAAAATTGGAGTTGTAGATGCTCAGTGGATCCGACATCGGGTTGTGCTATCTCTAAATAGCTCGGTTTGTGTTCCTCACAACCATTCAC

Basic information

species Physcomitrella patens
transcript PP1S70_58V6.1
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S70_58V6.1 (Physcomitrella patens), 3'ss of exon 12
lower sequence: GLYMA05G30850.1 (Glycine max), 3'ss of exon 10
gtaagtttatacgaagttgaatttcgtcagtcgtaggtgcagagcttacataactttctaattgcatcaacaaatggacacaagcttcggtggacttctttctactagttgaagtatcactctggttgttattt--tctcagtctctgtctgaattgttggatatctcatctactgaatggtttgtcttgatgatttgcagCCTGCACATGATAAAATTGGAGTTGTAGATGCTCAGTGGATCCGACATCGGGTTGTGCTATCTCTAAATAGCTCGGTTTGTGTTCCTCACAACCATTCAC
                                                                                                                        |  |  | |||  |  | | | |  || |   | |  |  | ||| |    || | ||  | |  |    |||  ||  ||||||| ||||| || ||||||||||| ||||||||||||||    || |  | | | |  || |||   |    |                         
-----------------------------------------------------------------------------------------------------------------------gtaagcctattacctggtattacttcctatggaactgatatgctatatggaatattaaactgatacttcctatg--ttatagCCTGCCCATGAGAAGATTGGAGTTGTTGATGCTCAGTGGATTGTGCACCAAGGTATTCCCTCACTAGGGAATCAG-------------------------

upper sequence: PP1S70_58V6.1 (Physcomitrella patens), 3'ss of exon 12
lower sequence: GLYMA11G37770.1 (Glycine max), 3'ss of exon 12
gtaagtttatacgaagttgaatttcgtcagtcgtaggtgcagagcttacataactttctaattgcatcaacaaatggacacaagcttcggtggacttctttctactagttgaagtatcactctggttgttattttctcagtctctgtctgaattgttggatatctcatctactgaatggtttgtcttgatgatttgcagCCTGCACATGATAAAATTGGAGTTGTAGATGCTCAGTGGATCCGACATCGGGTTGTGCTATCTCTAAATAGCTCGGTTTGTGTTCCTCACAACCATTCAC
                                ||  || ||   || ||||   | || ||| |  |    || | |     | |||  |   |   | | | | |    |||  |  |   ||     ||      || ||| |  |  | |   || |  | | | ||| |       |  | ||  |||| |  ||||||||||||| || ||||||||||| ||| ||||||||||    || |  | | | |  || |||   |    |                         
--------------------------------gtgagtccatt-ctcacatt-ttctcaaatcgtct----aatttggtgtgaccttaagataagcacatgccaat----gaaaaaaaaaagtgaaaaataaaaatgcaatctgtaac--attctgtgtaactttaaactatt------ctcctttttctgatat--agCCTGCACATGAGAAGATTGGAGTTGTTGATTCTCAGTGGATTGTTCACCAAGGTATTCCCTCACTAGGGAATCAG-------------------------

upper sequence: PP1S70_58V6.1 (Physcomitrella patens), 3'ss of exon 12
lower sequence: GLYMA05G30830.1 (Glycine max), 3'ss of exon 12
gtaagtttatacgaagttgaatttcgtcagtcgtaggtgcagagcttacataactttctaattgcatcaacaaatggacacaagcttcggtggacttctt-tctactagttgaagtatcactctggttgttattttctcagtctctgtctgaattgttggatatctcatctactgaatggtttgtcttgatgatttgcagCCTGCACATGATAAAATTGGAGTTGTAGATGCTCAGTGGATCCGACATCGGGTTGTGCTATCTCTAAATAGCTCGGTTTGTGTTCCTCACAACCATTCAC
                                                                                         |||   || || |||  |   | || | ||| |||  ||   ||||| |     |     ||   || |  |||   |||  |   |||    | |||   |    || ||||||| ||||| |||||||||||||| ||| ||||||||||    ||||    ||| |  || |||   |    |                         
-----------------------------------------------------------------------------------------gtgagtttgttgtctcattacttaaat-tca-tctaatttcaattttttttaattgcaattgctatgct--atagaacattaaactaata---tctctcactatcatgtagCCTGCCCATGAGAAAATTGGAGTTGTTGATTCTCAGTGGATTATTCATCAAAGTGTTCCCTCACTAGGGAATCAG-------------------------

upper sequence: PP1S70_58V6.1 (Physcomitrella patens), 3'ss of exon 12
lower sequence: AT3G27470.1 (Arabidopsis thaliana), 3'ss of exon 12
gtaagtttatacgaagttgaatttcgtcagtcgtaggtgcagagcttacataactttctaattgcatcaacaaatggacacaagcttcggtggacttctttctactagttgaagtatcactctggttgttattttctcagtctctgtctgaattgttggatatctcatctactgaatggtttgtcttgatgatttgcagCCTGCACATGATAAAATTGGAGTTGTAGATGCTCAGTGGATCCGACATCGGGTTGTGCTATCTCTAAATAGCTCGGTTTGTGTTCCTCACAACCATTCAC
                                                                                    || |     ||||  ||     ||    |    || ||| | |     | || |    ||| |   | |||||  |||||     || | |     ||| ||| |       |||   ||||| || ||||||||||||||||||||||| |||||   |||||  | ||| | |||  ||   |                              
----------------------------------------------------------------------------------gtctgctacttacttgctttgtacagccatatgcaca-tctagatccctctctcacgaattctatac-acttgttttatatcctcattaatcat--acttgccttaa-------cagAACGCACACGAGAAAATTGGAGTTGTAGATGCTCAATGGATTATACATCAAGGTGTTCCATCATTAGGGAATCAA-------------------------

upper sequence: PP1S70_58V6.1 (Physcomitrella patens), 3'ss of exon 12
lower sequence: Vv00s0187g00030.t01 (Vitis vinifera), 3'ss of exon 7
gtaagtttatacgaagttgaatttcgtcagtcgtaggtgcagagcttacataactttctaattgcatcaacaaatggacacaagcttcggtggacttctttctactagttgaagtatcactctggttgttattttctcagtctctgtctgaattgttggatatc-tcatctactgaatggtttgtcttgatgatttgcagCCTGCACATGATAAAATTGGAGTTGTAGATGCTCAGTGGATCCGACATCGGGTTGTGCTATCTCTAAATAGCTCGGTTTGTGTTCCTCACAACCATTCAC
                                                                                                      ||||     |  | ||   ||  || | ||| ||| |     | | |   ||       ||  |||| |    | |   | |||||    |    |||||||| ||||| |||||||||||||||||| |||| ||||||   ||||    | | |  || ||    | |  |                         
-----------------------------------------------------------------------------------------------------gtactgaccta--tgtctgcctacttctaattctcttatatcatttgtttgttagcatgcatgatcatattggaacttcctcgtctttgaaa----cagCCTGCCCATGAGAAAATTGGAGTTGTAGATTCTCAATGGATCATTCATCAAACTTTTCCCTCGCTTGGGAACCAG-------------------------

upper sequence: PP1S70_58V6.1 (Physcomitrella patens), 3'ss of exon 12
lower sequence: Vv13s0106g00570.t01 (Vitis vinifera), 3'ss of exon 3
gtaagtttatacgaagttgaatttcgtcagtcgtaggtgcagagcttacataactttctaattgcatcaacaaatggacacaagcttcggtggacttctttctactagttgaagtatcactctggttgttattttctcagtctctgtctgaattgttggatatc-tcatctactgaatggtttgtcttgatgatttgcagCCTGCACATGATAAAATTGGAGTTGTAGATGCTCAGTGGATCCGACATCGGGTTGTGCTATCTCTAAATAGCTCGGTTTGTGTTCCTCACAACCATTCAC
                                                                                                      ||||     |  | ||   ||  || | ||| ||| |   | | | |   ||       ||  |||| |    | | | | |||||    |    |||||||| ||||| |||||||||||||||||| ||||  |||||   ||||    ||| |  || ||    | |  |                         
-----------------------------------------------------------------------------------------------------gtactgaccta--tgtctgcctacttctaattctcttatattatttgtttgttagcatgcatgatcatattggaacttgctcgtctttgaaa----cagCCTGCCCATGAGAAAATTGGAGTTGTAGATTCTCAAGGGATCGTTCATCAAACTGTTCCCTCGCTTGGGAACCAG-------------------------

upper sequence: PP1S70_58V6.1 (Physcomitrella patens), 3'ss of exon 12
lower sequence: Vv05s0077g00080.t01 (Vitis vinifera), 3'ss of exon 7
gtaagtttatacgaagttgaatttcgtcagtcgtaggtgcagagcttacataactttctaattgcatcaacaaatggacacaagcttcggtggacttctttctactagttgaagtatcactctggttgttattttctcagtctctgtctgaattgttggatatc-tcatctactgaatggtttgtcttgatgatttgcagCCTGCACATGATAAAATTGGAGTTGTAGATGCTCAGTGGATCCGACATCGGGTTGTGCTATCTCTAAATAGCTCGGTTTGTGTTCCTCACAACCATTCAC
                                                                                                      ||||     |  | ||   ||  || | ||| ||| |   | | | |   ||       ||  |||| |    | |   | |||||    |    |||||||| ||||| |||||||||||||||||| ||||                                                                 
-----------------------------------------------------------------------------------------------------gtactgaccta--tgtctgcctacttctaattctcttatattatttgtttgttagcatgcatgatcatattggaacttcctcgtctttgaaa----cagCCTGCCCATGAGAAAATTGGAGTTGTAGATTCTCA-----------------------------------------------------------------

upper sequence: PP1S70_58V6.1 (Physcomitrella patens), 3'ss of exon 12
lower sequence: Vv01s0137g00770.t01 (Vitis vinifera), 3'ss of exon 12
gtaagtttatacgaagttgaatttcgtcagtcgtaggtgcagagcttacataactttctaattgcatcaacaaatggacacaagcttcggtggacttctttctactagttgaagtatcactctggttgttattttctcagtctctgtctgaattgttggatatctcatctactgaatggtttgtcttgatgatttgcagCCTGCACATGATAAAATTGGAGTTGTAGATGCTCAGTGGATCCGACATCGGGTTGTGCTATCTCTAAATAGCTCGGTTTGTGTTCCTCACAACCATTCAC
                                                                                                      ||||     | || |  ||     |  || | ||  | | | ||| ||      || ||   |||| |    | |   | |||||    |    |||||||| ||||| ||||||||||| |||||| |||| ||||||   ||||    ||| |  || ||    | |  |                         
-----------------------------------------------------------------------------------------------------gtactgacctatgtctgcctacttctaatactctcatattatttgtttgttagcatgcatga-tcatattggaacttcctcgtctttgaaa----cagCCTGCCCATGAGAAAATTGGAGTCGTAGATTCTCAATGGATCGTTCATCAAACTGTTCCCTCGCTTGGGAACCAG-------------------------


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtctgaattgttggatatctcatctactgaatggtttgtcttgatgatttgcagCCTGCACATGATAAAATTGGAGTTGTAGATGCTCAGTGGATCCGACATCGGGTTGTGCTATCTCTAAATAGCTCGGTTTGTGTTCCTCACAACCATTCAC
                                       tcttgat  putative branch site (score: 4)
      aattgtt  TA-rich tract