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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaggcggtttgttgttatgtgatatatgtttccaaatcgtttgttttgctggcctagtttgaaatgtctataacattatatttgatggcctcctaacagtctttctcatttcagGGTAATGAATTGATGAGGATTCTAAACATAGCAGCGTTTGCTGTATCTGGCTATGCGTCCACGGAAGGCAGGCAATGCAAACCTTTCAACCCTCTACTTG

Basic information

species Arabidopsis thaliana
transcript AT1G13170.2
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G13170.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA11G37650.1 (Glycine max), 3'ss of exon 4
gtaggcggtttgttgttatgtgatatatgtttccaaatcgtttgttttgctggcctagtttg-aaatgtctataacattatatttg-atggcctcctaacagtctttctcatt--tcagGGTAATGAATTGATGAGGATTCTAAACATAGCAGCGTTTGCTGTATCTGGCTATGCGTCCACGGAAGGCAGGCAATGCAAACCTTTCAACCCTCTACTTG
                 |  | |||||| | | ||  |       |||    || |  |||| |  | ||||    |||  ||| | || |  |   ||   | |||   |||   ||||| ||||| |||||||| ||||||||||| ||||| |||||||| ||| |||||||||| || |||||  | ||||| |||||||| || ||| ||||||
-----------------aaat-atatatatattcagctt-cacactttaagtgcatgctttgtatgtttctagtttattgaattagcattgtttgaaaattatgttttgtattgtgcagGGGAATGACTTGATGAGAATTCTAAACATTGCAGCTTTTGCTGTGTCTAGCTATGCGTCAACTGAAGGTCGACAATGTAAACCTTTTAATCCTTTACTTG

upper sequence: AT1G13170.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA18G01590.1 (Glycine max), 3'ss of exon 4
gtaggcggtttgttgttatgtgatatatgtttccaaatcgtttgttttgctggcctagtttg-aaatgtctataacattatatttg-atggcctcctaacagtctttctcatt--tcagGGTAATGAATTGATGAGGATTCTAAACATAGCAGCGTTTGCTGTATCTGGCTATGCGTCCACGGAAGGCAGGCAATGCAAACCTTTCAACCCTCTACTTG
                      | | |  ||    |      |  |||    || |  |||  |  | ||||    |||  ||| | || |  |   ||   | |||  ||||   ||||| ||||| |||||||| ||||||||||| ||||| |||||||| ||| |||||||||| || |||||  | ||||| |||||||| || ||| |||| |
-------------------aaaaaaaacattattcagcttcatactttaagtgcatgctttatatgtttctagtttattgaattagcattgtttgaaaattatgttttgcattgtgcagGGGAATGATTTGATGAGAATTCTAAACATTGCAGCTTTTGCTGTGTCTAGCTATGCGTCAACTGAAGGTCGACAATGTAAACCTTTTAATCCTTTACTCG

upper sequence: AT1G13170.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: Vv01s0137g00290.t01 (Vitis vinifera), 3'ss of exon 4
gtaggcggtttgttgttatgtgatatatgtttccaaatcgtttgttttgctggcctagtttgaaatgtctataacattatatttgatggcctcctaacagtctttctcatttcagGGTAATGAATTGATGAGGATTCTAAACATAGCAGCGTTTGCTGTATCTGGCTATGCGTCCACGGAAGGCAGGCAATGCAAACCTTTCAACCCTCTACTTG
         ||||  |  | |    | ||||    ||  ||||    |  |      ||  || ||   |  ||    ||   ||| |  |     |  || || |      ||||| ||||| |||||||| ||||| || || || || |||||||||||||||||||| || || |||||  |||| |||||||| || || ||||| ||||
-------acttgtaatggtttc-cgtctgttcttgaactgttttacatcataattgggt--gatattaattgaattccatgactgaagagc-----atggttttacctggcgcagGGAAATGACTTGATGAGAATTCTGAATATTGCCGCTTTTGCTGTATCTGGCTATGCATCAACAGAAGGTCGGCAGTGCAAACCCTTTAATCCTCTCCTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgaaatgtctataacattatatttgatggcctcctaacagtctttctcatttcagGGTAATGAATTGATGAGGATTCTAAACATAGCAGCGTTTGCTGTATCTGGCTATGCGTCCACGGAAGGCAGGCAATGCAAACCTTTCAACCCTCTACTTG
                               tcctaac  putative branch site (score: 1)
                                        tctttctcatttc  putative PPT
         tataacattatatttg  TA-rich tract