Table 4 RNA-seq raw data and mapping metrics.

From: Transcriptomic analyses of murine ventricular cardiomyocytes

Sample ID Genotype # read pairs total # non-rRNA read pairs % of total Insert size # read pairs mapping to a gene % of total # no-feature read pairs % of total # ambiguous read pairs % of total
CASK_Ct1 WT+Cre 47,543,799 47,343,548 99.58 492 34,076,980 71.67 2,721,942 5.73 8,287,647 17.43
CASK_Ct2 WT+Cre 45,437,500 45,287,356 99.67 476 33,988,592 74.8 1,440,229 3.17 7,578,641 16.68
CASK_Ct3 WT+Cre 55,117,414 54,944,721 99.69 479 40,469,641 73.42 1,790,829 3.25 11,381,005 20.65
CASK_KO1 CASK_fl+Cre 45,685,573 45,565,815 99.74 472 32,765,612 71.72 5,738,568 12.56 5,504,670 12.05
CASK_KO2 CASK_fl+Cre 55,895,769 55,607,105 99.48 511 39,344,558 70.39 2,372,238 4.24 12,476,403 22.32
CASK_KO3 CASK_fl+Cre 56,437,329 56,008,449 99.24 499 42,159,185 74.7 2,804,256 4.97 9,655,232 17.11
MDX_1 MDX 17,485,935 17,320,513 99.05 380 (sample exluded)      
MDX_2 MDX 39,536,744 39,037,330 98.74 447 27,475,113 69.49 3,258,092 8.24 6,543,268 16.55
MDX_3 MDX 39,626,959 39,432,254 99.51 455 27,841,146 70.26 2,169,924 5.48 7,327,584 18.49
MDX_4 MDX 42,406,246 40,919,896 96.49 488 29,805,158 70.28 2,905,415 6.85 6,497,990 15.32
MDX_5 MDX 50,934,677 47,518,076 93.29 484 34,233,480 67.21 1,864,210 3.66 10,028,518 19.69
MDX_Ct1 WT 48,311,563 46,288,106 95.81 380 32,827,800 67.95 4,353,181 9.01 7,779,264 16.1
MDX_Ct2 WT 47,283,192 46,988,962 99.38 446 32,237,279 68.18 2,304,142 4.87 10,939,883 23.14
MDX_Ct3 WT 35,275,617 34,938,284 99.04 427 24,235,276 68.7 3,631,537 10.29 4,922,208 13.95
MDX_Ct4 WT 33,977,175 32,900,815 96.83 515 25,298,933 74.46 1,713,065 5.04 4,619,558 13.6
MDX_Ct5 WT 49,379,536 45,499,492 92.14 485 32,227,570 65.27 1,210,708 2.45 10,698,976 21.67
SAP_Ct1 WT+Cre 47,930,112 47,715,719 99.55 461 34,192,649 71.34 1,965,652 4.1 9,896,590 20.65
SAP_Ct2 WT+Cre 44,934,245 44,566,395 99.18 444 30,350,071 67.54 4,879,732 10.86 7,491,483 16.67
SAP_Ct3 WT+Cre 43,586,968 43,382,766 99.53 451 29,836,839 68.45 1,332,267 3.06 8,751,881 20.08
SAP_KO1 SAP_fl+Cre 44,319,566 44,146,526 99.61 452 34,155,235 77.07 2,606,959 5.88 5,090,692 11.49
SAP_KO2 SAP_fl+Cre 41,547,517 41,397,099 99.64 469 28,697,320 69.07 3,765,768 9.06 7,431,842 17.89
SAP_KO3 SAP_fl+Cre 46,143,349 45,812,985 99.28 443 30,710,635 66.55 5,476,238 11.87 8,174,538 17.72
  1. Total and non-ribosomal RNA read pairs, average RNA fragment size (bp), and mapping metrics, including absolute number and percentages of read pairs mapping to all annotated exons of the mouse reference genome, and no-feature and ambiguous reads, per sample. Note the low number of read pairs in MDX_1, which is therefore excluded from further analysis. CASK KO and Ctrl, SAP97 KO and Ctrl ns=3, MDX KO n=4, MDX Ctrl n=5.