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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gctaggtctactatttgttctcctcaaattaacttgtgttgtgccgtgttgcagattttcgttttacatggtactgaccagagacaattaaacatttcagGTTAAAGAGATCCTTATTGAGGAGTCAAATGTGCAGCCTGTCAACAGTCCAGTGACGGTTTGTGGTGATATTCATGGTCAGTTTCATGATCTAATGAAAC

Basic information

species Glycine max
transcript GLYMA0048S00290.2
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA0048S00290.2 (Glycine max), 3'ss of exon 1
lower sequence: AT1G50370.1 (Arabidopsis thaliana), 3'ss of exon 1
gctaggtctactatttgttctcctcaaattaacttgtgttgtgccgtgttgcagattttc--gttttacatggtactgaccagagacaattaaacattt---cagGTTAAAGAGATCCTTATTGAGGAGTCAAATGTGCAGCCTGTCAACAGTCCAGTGACGGTTTGTGGTGATATTCATGGTCAGTTTCATGATCTAATGAAAC
   ||   |   | ||||  |   ||       |  | || |  | ||     ||||| |     |    ||||| |   || ||| | ||  ||  ||    |||| ||||| || ||||||||||| |||||||| || |||||||||||||| || || || ||||||||||| ||||| |||||||||||||| |||||||
---agtgttgaaacttgtagtag-cagccgtcttcttcttttttcatgacaatgatttgctaagatactctggtaattcaca-agatattttgactattatatagGTGAAAGAAATTCTTATTGAGGAATCAAATGTACAACCTGTCAACAGTCCTGTCACCGTCTGTGGTGATATCCATGGCCAGTTTCATGATCTTATGAAAC

upper sequence: GLYMA0048S00290.2 (Glycine max), 3'ss of exon 1
lower sequence: AT3G19980.1 (Arabidopsis thaliana), 3'ss of exon 1
gctaggt-ctactatttgttctcctcaaattaacttgtgttgtgccgtgttgcagattttcgttttacatggtactgaccagagacaattaaacat-------ttcagGTTAAAGAGATCCTTATTGAGGAGTCAAATGTGCAGCCTGTCAACAGTCCAGTGACGGTTTGTGGTGATATTCATGGTCAGTTTCATGATCTAATGAAAC
   || | | | | | || ||||||    | | |   || | |   |  ||||  |  |   |    ||||||  | ||||||     || | |||       | ||||| |||||||| || |||||||||||||| || |||||||| ||||||||||| || || ||||||||||| ||||| |||||||||||||| ||||| |
---agataccattttatggtctcctttc-tcagcgattgatttatagatttgcgaagatgaat----catggtgttaaccagaagatgtttatcataatgttatacagGTGAAAGAGATTCTGATTGAGGAGTCAAACGTACAGCCTGTAAACAGTCCAGTCACCGTATGTGGTGATATCCATGGCCAGTTTCATGATCTTATGAAGC

upper sequence: GLYMA0048S00290.2 (Glycine max), 3'ss of exon 1
lower sequence: Vv10s0071g00950.t01 (Vitis vinifera), 3'ss of exon 1
-gctaggtctactatttgttc---tcctcaaattaacttgtgttgtgccgtgttgcagattttcgttttacatggtactgaccagagacaattaaacatttcagGTTAAAGAGATCCTTATTGAGGAGTCAAATGTGCAGCCTGTCAACAGTCCAGTGACGGTTTGTGGTGATATTCATGGTCAGTTTCATGATCTAATGAAAC
  |||||   |  |    ||    |  |  ||  |||      |  |   | | || |  |      |||  || |   |||         ||  | |||| |||| ||||||||||| ||||| ||||| ||||| ||||||||||| |||||||| || |||||||||||||||||||| ||||| ||||||||||||||||
ttctaggcaaaaaacacatttgggtgttttaaacaacactgaataagttttatagctgcctccatgcttatctgat---gactgatatatgttctatattt-agGTAAAAGAGATCCTCATTGAAGAGTCTAATGTTCAGCCTGTCAATAGTCCAGTCACTGTTTGTGGTGATATTCATGGCCAGTTCCATGATCTAATGAAAC

upper sequence: GLYMA0048S00290.2 (Glycine max), 3'ss of exon 1
lower sequence: PP1S207_36V6.1 (Physcomitrella patens), 3'ss of exon 1
-gctaggtctacta--tttgttctcctcaaattaacttgtgttgtgccgtgttgcagattttcgttttacatggtactgaccagagacaattaaa--catttcagGTTAAAGAGATCCTTATTGAGGAGTCAAATGTGCAGCCTGTCAACAGTCCAGTGACGGTTTGTGGTGATATTCATGGTCAGTTTCATGATCTAATGAAAC
  ||  || |   |  || || || ||  |      || |   |    || | || |   |  || || ||||    | | || |     ||     |||  ||||| ||||| ||  |  | ||||| || ||||| ||||||||||||||||| || || |||||||| ||||| ||||| |||||||||||  | ||||| |
ctctgcgtttgagaaattagtccttctttat---ggttatac-gaatggtctcgctggcatcggtgtt-catgactttcatcaaactttgttttgttcatcgcagGTGAAAGAAATATTGGTGGAGGAATCCAATGTTCAGCCTGTCAACAGTCCCGTTACTGTTTGTGGCGATATCCATGGCCAGTTTCATGACTTGATGAAGC

upper sequence: GLYMA0048S00290.2 (Glycine max), 3'ss of exon 1
lower sequence: PP1S31_220V6.1 (Physcomitrella patens), 3'ss of exon 1
----gctaggtctactatttgttctcctcaaattaacttgtgttgtgccgtgttgcagattttcgttttacatggtactgaccagagacaattaaacatttcagGTTAAAGAGATCCTTATTGAGGAGTCAAATGTGCAGCCTGTCAACAGTCCAGTGACGGTTTGTGGTGATATTCATGGTCAGTTTCATGATCTAATGAAAC
    |  || |||| |  | ||| | |      | |   | |  |    |  |  | |   || ||||| ||| |  |     |    |  ||        ||||| ||||| ||  | || |||||||| ||||| ||||||||||||||||| || || |||||||| ||||||||||| || ||||||||  ||||||| |
tgccgtcagctctatt--tggttgtgcgaggggttatcagcgcag-atggcctctctggcatt-gtttttcattgctcaataaactctcttttgtctcccgcagGTGAAAGAAATATTGATGGAGGAGTCCAATGTTCAGCCTGTCAACAGTCCTGTTACTGTTTGTGGCGATATTCATGGACAATTTCATGACTTAATGAAGC

upper sequence: GLYMA0048S00290.2 (Glycine max), 3'ss of exon 1
lower sequence: EFJ05314 (Selaginella moellendorffii), 3'ss of exon 1
gctaggtctactatttgttctcctcaaattaacttgtgttgtgccgtg-ttgcagattttcgttttacatggtactgaccagagacaattaaac---atttcagGTTAAAGAGATCCTTATTGAGGAGTCAAATGTGCAGCCTGTCAACAGTCCAGTGACGGTTTGTGGTGATATTCATGGTCAGTTTCATGATCTAATGAAAC
                                   |||  ||||||   || |    | | ||||  | |    ||  |||  ||   |||       || ||||| || |||||  |  | |||||||| ||||||||||| ||  ||||||||||||| || || || |||||||| || ||||| || ||| | ||||| |
-----------------------------------gtga-gtgccgcaattccttgctcttgtttcgcct----ctcgccatggatccttagggccggttccagGTGAAGGAGATTTTGGTAGAGGAGTCCAATGTGCAGCCAGTAGACAGTCCAGTGACAGTGTGCGGCGATATTCACGGCCAGTTCCACGATTTGATGAAGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgttgcagattttcgttttacatggtactgaccagagacaattaaacatttcagGTTAAAGAGATCCTTATTGAGGAGTCAAATGTGCAGCCTGTCAACAGTCCAGTGACGGTTTGTGGTGATATTCATGGTCAGTTTCATGATCTAATGAAAC
                          tactgac  putative branch site (score: 1)
                                      acaattaaacattt  TA-rich tract