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Archiver > GENEALOGY-DNA > 2009-06 > 1245375255


From: Thomas Krahn <>
Subject: Re: [DNA] Discovered SNPs from Walk the Y
Date: Thu, 18 Jun 2009 20:34:15 -0500
References: <005501c9f068$7e0bfe30$6400a8c0@Ken1>
In-Reply-To: <005501c9f068$7e0bfe30$6400a8c0@Ken1>


Ken Nordtvedt wrote:
> Four SNPs were discovered in haplogroup I2a several days ago --- L158 to L161.
>
> They are not put into Krahn's y browser. And yesterday some folks wanting to order them said they were not in FTDNA's catalog of SNPs for sale.
>
Ken,

I've updated Ymap (http://ymap.ftdna.com).

Within the next days we'll make a larger update of the advanced orders
page and according to our current plans the following list of markers
will be included:

SNP Mutation Ancestral Derived Chr Position_start
Position_end RS-Number Comment
L126 C to T C T ChrY 13411027 13411027
rs34790845 Found in a I-M284 person
L130 G to A G A ChrY 6813503 6813503 n/a Found
in one R-L21 person
L131 C to T C T ChrY 17882202 17882202 rs2215828
Downstream hg T-M70?
L132 C to T C T ChrY 15973591 15973591 rs7893044
Downstream of R-L1
L133 G to A G A ChrY 6992199 6992199 rs35573420
Derived in a E1a x (M44, P110) person
L134 C to G C G ChrY 13360329 13360329 n/a Found
in a hg J WTY participant. Most likely synonymous with hg J (M304, P209)
L135 C to A C A ChrY 13638642 13638642 n/a Found
in a hg R-L2* WTY participant
L136 T to - ins del ChrY 7630823 7630823 n/a
Derived in J-P56 and J-P58, ancestral in J-M365
L137 G to A G A ChrY 10401250 10401250
rs34441307 Found in a I-M284 person
L138 A to T A T ChrY 2902214 2902214 rs9786091
Possibly synonymous with M269
L139 G to A G A ChrY 13981304 13981304 n/a Found
in a hg G-P303* WTY participant, ancestral in G-L13
L140 T to - ins del ChrY 7630859 7630859 n/a
Found in a hg G-P303* and G-L13 WTY participant
L141 - to A del ins ChrY 2948607 2948607 n/a
Found in a hg G-P303* and G-L13 WTY participant
L142 G to A G A ChrY 6813306 6813306 n/a Found
in G (and one E?). Ancestral state unclear.
L143 G to T G T ChrY 15935511 15935511 n/a Aka
DYS643 Null, downstream E-V13*
L147 T to C T C ChrY 6813258 6813258 n/a Derived
in J-P58 and O? (ancestral in E, G, H, I, J-M67, J1* and R)
L148 G to T G T ChrY 15951058 15951058 n/a Found
in a hg R-L48* WTY participant
L149 T to G T G ChrY 8486380 8486380 n/a Found
in a hg G-P303 WTY participant
L150 C to T C T ChrY 10618791 10618791 rs9785831
Downstream of R-L23
L151 C to T C T ChrY 15001941 15001941 rs2082033
Downstream of R-L23
L153 A to G A G ChrY 5735094 5735094 rs2565384 Q1b?
L154 T to G T G ChrY 8674138 8674138 rs35178723 G?
L155 C to T C T ChrY 5418993 5418993 rs2573840 G?
L156 A to T A T ChrY 15684135 15684135
rs35190095 G2? (G1 ancestral)
L157 T to A T A ChrY 17072101 17072101
rs17222657 derived under I1? and R-U152?
L158 G to A G A ChrY 21905948 21905948 n/a Found
in a hg I-M26 WTY participant
L159 T to G T G ChrY 14320358 14320358 n/a Found
in a hg I-M26 WTY participant. Intercalation of a poly G with a
dinucleotide STR.
L160 G to A G A ChrY 14711938 14711938 n/a Found
in a hg I-M26 WTY participant
L161 C to T C T ChrY 20923106 20923106 n/a Found
in a hg I-M423 WTY participant
U1 A to G A G ChrY 13568272 13568272 rs9785956
Downstream G-P303 (Sims et al 2009)
M521 C to T C T ChrY 6882948 6882948 n/a
Downstream E-M78?

Please note that most of these SNPs are largely unexplored. I can only
make sure that you get a reliable SNP result but the exact topology and
the frequency in the population are entirely unknown for many of them.
So please only order them if you're absolutely sure what you're doing.
The table above was only a quick summary of the data I have available.
The haplogroup specialists on this list may find errors and reply with
their opinion/correction so that we can capture the biggest
misunderstandings before they get on sale.

Also if you are missing a marker feel free to remind me. I will check
and see what I can do or I can at least give an explanation why we
didn't include that marker yet. The SNPs in the list above are all
verified to work as a sequencing assay in our lab but we haven't tested
positive controls for all of them yet. If you have tested positive for
one of the terminal SNPs in a different laboratory you may want to
contact me so that I can look up if I still need a positive control
sample for that particular marker.

I hope this helps,

Thomas


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