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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...agaacttatgacttcatacatattattcaaactctcaccattaaattgacttcacaacattgataattaattattctgatgcaattatgtctttttgcagGAGCTACTACCGGTGCACAAACAGCAAATGCACGGTGAAGAAGAGGGTTGAACGCTCTTCCGAGGACCCAACGATTGTGATTACTACATATGAAGGGCAA

Basic information

species Glycine max
transcript GLYMA01G06870.4
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA01G06870.4 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os07g02060.1 (Oryza sativa), 3'ss of exon 2
agaacttatgacttcatacatattattcaaactctcaccattaaattgacttcacaacattgataattaattattctg-atgcaattatgtctttttg----cagGAGCTACTACCGGTGCACAAACAGCAAATGCACGGTGAAGAAGAGGGTTGAACGCTCTTCCGAGGACCCAACGATTGTGATTACTACATATGAAGGGCAA
     | || |   |  | |  || ||   |     |  | | |||  |  ||          ||||||||||   ||  ||    ||| |           ||||||||||||| ||||||| |||||||| ||||||||||||||| |||| || ||||| ||||| |||||  |  | || || || || || || || |||
-----taattagcccccaaactttttttgcaaataaattaatcaatcaatctcttggttaaattaattaattaacatgtgtgtgtatatataaaaaaaaaaacagGAGCTACTACAGGTGCACGAACAGCAAGTGCACGGTGAAGAAGCGGGTGGAGCGCTCCTCCGACGACCCCTCCGTCGTCATCACCACCTACGAGGGCCAA

upper sequence: GLYMA01G06870.4 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os03g55080.1 (Oryza sativa), 3'ss of exon 2
agaacttatgacttcatacatattattca--aactctcaccattaaattgacttcacaac---attgataattaattattctgatgcaattatgtctttttgcagGAGCTACTACCGGTGCACAAACAGCAAATGCACGGTGAAGAAGAGGGTTGAACGCTCTTCCGAGGACCCAACGATTGTGATTACTACATATGAAGGGCAA
  ||   |   |  ||| |||| |   ||  |    | | |||  | |||  ||||   |   | | || || |  ||     |     || ||  |   | ||||||||||||| ||||||| |||||||| ||||| ||||||||| | || || || |||||||| |||||  |  | ||||| || || || || || || 
--aagacacaccaccatccataattgccatcattattaaacatggatttg--ttcaaggctcaactaatcatcacataacaaaaaatggttttgcttgact-cagGAGCTACTACAGGTGCACCAACAGCAAGTGCACTGTGAAGAAGCGCGTGGAGCGGTCTTCCGACGACCCTTCCGTCGTGATCACCACCTACGAGGGCCAG

upper sequence: GLYMA01G06870.4 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G018721_T01 (Zea mays), 3'ss of exon 2
---agaacttatgacttcatacatattattca-aactctcaccattaaattgacttcacaacattgataatta--------attattctgatgcaattatgtcttt-ttgcagGAGCTACTACCGGTGCACAAACAGCAAATGCACGGTGAAGAAGAGGGTTGAACGCTCTTCCGAGGACCCAACGATTGTGATTACTACATATGAAGGGCAA
      |||    ||| ||  |||   ||    ||||  | |    || |  ||  | |||  | | ||  ||        || ||   |   |   |  || |   | |||||||||||||||| ||||| |||||||| ||||||||||||||| | || || ||||| ||||| |||||  |  | || || || || || || || || 
gtacctactggctactgcacgcatggcatctggaactagctctgaaaattaaacccctcaagctagctagctagctctagaatcatcgagtcacggatgagtgtacgtagcagGAGCTACTACCGCTGCACCAACAGCAAGTGCACGGTGAAGAAGCGCGTGGAGCGCTCCTCCGACGACCCCTCCGTCGTCATCACCACCTACGAGGGCCAG

upper sequence: GLYMA01G06870.4 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G143204_T03 (Zea mays), 3'ss of exon 2
agaacttatgacttcatacatattattcaaactctcaccattaaattgacttcacaacattgataattaattattctgatgcaattatgtcttttt-gcagGAGCTACTACCGGTGCACAAACAGCAAATGCACGGTGAAGAAGAGGGTTGAACGCTCTTCCGAGGACCCAACGATTGTGATTACTACATATGAAGGGCAA
||   || |  |||   |     ||    ||||   |  ||||   |||   |  | |    | || || | |   | | |    ||  | | ||  ||||||| |||||| ||||||| |||||||||||||| ||||||||| | || ||  | || ||||| |||||  |  | || || || || || || || || 
agtttttttttctttgcattacgtacggcaactaatataattattatgataac-tagctagcacaagtagtcaaaattaaggggctaaatttcttgagcagGAGTTACTACAGGTGCACCAACAGCAAATGCACAGTGAAGAAGCGCGTGGAGAGGTCCTCCGACGACCCCTCCGTGGTCATCACCACCTACGAGGGCCAG

upper sequence: GLYMA01G06870.4 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G143204_T02 (Zea mays), 3'ss of exon 2
agaacttatgacttcatacatattattcaaactctcaccattaaattgacttcacaacattgataattaattattctgatgcaattatgtctttttgcagGAGCTACTACCGGTGCACAAACAGCAAATGCACGGTGAAGAAGAGGGTTGAACGCTCTTCCGAGGACCCAACGATTGTGATTACTACATATGAAGGGCAA------------
        |  | | |   |    |   ||  | | |  ||||   | |||    | ||    || | ||  |||  |  || |  |  |  ||  ||||||| |||||| ||||||| |||||||||||||| ||||||||| | || ||  | || ||||| |||||  |  | || || || || || || || ||             
-------tttgcattacgtacggcaactaa--tataattattatgataactagctagcacaagtagtcaaa-attaaggggcta--aatttcttgagcaggagttactacagGTGCACCAACAGCAAATGCACAGTGAAGAAGCGCGTGGAGAGGTCCTCCGACGACCCCTCCGTGGTCATCACCACCTACGAGGGCCAGCACTGCCACAGC

upper sequence: GLYMA01G06870.4 (Glycine max), 3'ss of exon 2
lower sequence: AT1G69310.1 (Arabidopsis thaliana), 3'ss of exon 2
agaacttatgacttcatacatattattcaaa-ctctcaccattaaattgacttcacaacattgataattaattattctgatgcaattatgtctttttgcagGAGCTACTACCGGTGCACAAACAGCAAATGCACGGTGAAGAAGAGGGTTGAACGCTCTTCCGAGGACCCAACGATTGTGATTACTACATATGAAGGGCAA
               ||| |  | ||      || | | ||||   || | || ||     ||  |  ||  | |  |  ||   || ||    | |  |||||||||||  | ||||||||||||| |||||||||||||||||| || ||||| || || || || ||| |||| ||||| || ||||| ||||| |||
----------gtcgtatataagtcatcagtttctttgatcattctctt-agttaacggatatgcaacctatatttcttattgttgttgtga---tatatagGAGCTACTATAGATGCACAAACAGCAGATGCACGGTGAAGAAGAGAGTAGAACGTTCATCAGATGATCCATCGATAGTGATCACAACATACGAAGGACAA

upper sequence: GLYMA01G06870.4 (Glycine max), 3'ss of exon 2
lower sequence: Vv01s0011g00720.t01 (Vitis vinifera), 3'ss of exon 2
-agaacttatgacttc---atacatattattcaaactctcaccattaaattgacttcaca-acattgataattaattattctgatgcaattatgtctttttgcagGAGCTACTACCGGTGCACAAACAGCAAATGCACGGTGAAGAAGAGGGTTGAACGCTCTTCCGAGGACCCAACGATTGTGATTACTACATATGAAGGGCAA
  || ||  ||  ||    | | || || ||       |    |  | ||  | |  |     ||||| ||   |||| | | || ||   ||     ||||||||||||| ||||||||||||||||||||||||||||||||||| || ||||||||||| || ||||| || |  || || || |||||||||||||| |||
gggatctcttgggttggaaaaaaatcttgttagctagttatatagcagataaattggatttgtattgaaaaaagattaattttattcacacat-----tttgcagGAGCTATTACCGGTGCACAAACAGCAAATGCACGGTGAAGAAAAGAGTTGAACGCTCCTCGGAGGATCCCAGCATCGTAATCACTACATATGAAGGCCAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgacttcacaacattgataattaattattctgatgcaattatgtctttttgcagGAGCTACTACCGGTGCACAAACAGCAAATGCACGGTGAAGAAGAGGGTTGAACGCTCTTCCGAGGACCCAACGATTGTGATTACTACATATGAAGGGCAA
                            ttctgat  putative branch site (score: 3)
                                          tgtcttttt  putative PPT
        acaacattgataatta  TA-rich tract