Strain-specific RNA-seq data was extracted from NCBI SRA or provided directly to UCSC and aligned to the strain specific assembly using STAR. For each tissue, expression wiggle tracks were generated and normalized by bamCoverage, then averaged by wiggletools. High confidence splice junctions were parsed from the STAR splice junction tab file. Scores are on a 0-1000 range and measure the proportion of individual accessions that support this junction.
Genome | Tissue | Institute | Accessions |
---|---|---|---|
129S1/SvImJ | brain | Sanger | ERR033018,ERR033019 |
liver | Jackson Labs | SRR826284,SRR826285,SRR826286,SRR826287,SRR826288,SRR826289,SRR826290,SRR826291,SRR826292,SRR826293,SRR826294,SRR826295,SRR826296,SRR826297,SRR826298,SRR826299 | |
A/J | brain | Sanger | ERR033008,ERR033009 |
liver | Jackson Labs | SRR826300,SRR826301,SRR826302,SRR826303,SRR826304,SRR826305,SRR826306,SRR826307,SRR826308,SRR826309,SRR826310,SRR826311,SRR826312,SRR826313,SRR826314,SRR826315 | |
AKR/J | brain | Sanger | ERR033010,ERR033011 |
BALB/cJ | brain | Sanger | ERR033005,ERR033014 |
C3H/HeJ | brain | Sanger | ERR032995,ERR032996 |
C57BL/6NJ | brain | Sanger | ERR033015,ERR033016 |
CAST/EiJ | brain | Sanger | ERR032997,ERR032998 |
UNC | SRR1920268,SRR1920269,SRR1920270,SRR1921023,SRR1924463,SRR1924464,SRR1924465 | ||
liver | EBI | ERR120692,ERR120694 | |
Jackson Labs | SRR826332,SRR826333,SRR826334,SRR826335,SRR826336,SRR826337,SRR826338,SRR826339,SRR826340,SRR826341,SRR826342,SRR826343,SRR826344,SRR826345,SRR826346,SRR826347 | ||
Sanger | 16493_7_3 | ||
spleen | Sanger | 16493_7_6 | |
CBA/J | brain | Sanger | ERR032993,ERR032994 |
DBA/2J | brain | Sanger | ERR033006,ERR033007 |
FVB/NJ | brain | Sanger | 16493_7_8 |
LP/J | brain | Sanger | ERR032992 |
NOD/ShiLtJ | brain | Sanger | ERR032989,ERR032990,ERR032991,ERR033017 |
liver | Jackson Labs | SRR826348,SRR826349,SRR826350,SRR826351,SRR826352,SRR826353,SRR826354,SRR826355,SRR826356,SRR826357,SRR826358,SRR826359,SRR826360,SRR826361,SRR826362,SRR826363 | |
NZO/HlLtJ | brain | Sanger | ERR033001,ERR033002 |
liver | Jackson Labs | SRR826364,SRR826365,SRR826366,SRR826367,SRR826368,SRR826369,SRR826370,SRR826371,SRR826372,SRR826373,SRR826374,SRR826375,SRR826376,SRR826377,SRR826378,SRR826379 | |
PWK/PhJ | brain | Sanger | ERR033003,ERR033004 |
UNC | SRR1924499,SRR1924500,SRR1924501,SRR1924502,SRR1924503,SRR1924504,SRR1924505,SRR1924506 | ||
liver | Jackson Labs | SRR826380,SRR826381,SRR826382,SRR826383,SRR826384,SRR826385,SRR826386,SRR826387,SRR826388,SRR826389,SRR826390,SRR826391,SRR826392,SRR826393,SRR826394,SRR826395 | |
Sanger | 16493_7_2 | ||
spleen | Sanger | 16493_7_5 | |
SPRET/EiJ | brain | Sanger | ERR033012,ERR033013 |
liver | EBI | ERR476403,ERR476405,ERR476407 | |
Sanger | 16493_7_1 | ||
WSB/EiJ | brain | Sanger | ERR032999,ERR033000 |
UNC | SRR1924541,SRR1924542,SRR1924543,SRR1924544,SRR1924545,SRR1924546,SRR1924547,SRR1924548 | ||
liver | Jackson Labs | SRR826396,SRR826397,SRR826398,SRR826399,SRR826400,SRR826401,SRR826402,SRR826403,SRR826404,SRR826405,SRR826406,SRR826407,SRR826408,SRR826409,SRR826410,SRR826411 |