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Table 2 Differentially expressed genes in the longissimus thoracis muscle of Nelore cattle divergent for intramuscular fat content phenotypes

From: Prediction of hub genes associated with intramuscular fat content in Nelore cattle

Gene Locus HIF (μ) LIF (μ) Fold change (log2)* q value
CDS1 6:101195739–101,273,209 0.56 1.92 1.79 0.02
TNC 8:105965489–106,067,896 0.71 1.83 1.37 0.01
BARX2 29:33240583–33,256,128 1.49 3.60 1.28 0.04
EGR1 7:51438971–51,441,815 12.59 30.35 1.27 0.01
CCL2 19:16232955–16,234,822 9.64 21.62 1.16 0.01
MXRA5 X:138875004–138,904,034 1.06 2.20 1.06 0.01
PCDH12 7:54685624–54,703,271 1.10 2.18 0.99 0.01
SLC22A4 7:23382631–23,425,462 3.93 7.81 0.99 0.04
SLC2A3 5:101896620–101,909,565 4.74 9.39 0.99 0.01
APLNR 15:81734844–81,738,412 1.37 2.68 0.96 0.01
FSCN1 25:39292718–39,302,192 4.08 7.02 0.78 0.01
COL18A1 1:146989202–147,041,015 2.88 4.90 0.77 0.01
CLDN5 17:74749249–74,750,524 14.81 24.51 0.73 0.01
CD93 13:42244261–42,247,908 6.31 10.10 0.68 0.01
MCAM 15:30414471–30,422,213 5.15 8.12 0.66 0.04
DLL4 10:36577284–36,586,360 2.68 4.21 0.65 0.04
BOLA 23:28502516–28,506,343 41.94 65.42 0.64 0.01
IER2 7:13543658–13,548,059 4.94 7.62 0.63 0.05
IER3 23:28088454–28,089,726 10.11 15.49 0.62 0.04
PLXND1 22:56776197–56,825,067 2.38 3.58 0.59 0.01
PPP1R3B 27:24314781–24,323,720 13.34 19.54 0.55 0.04
NFKBIA 21:46065545–46,068,942 32.35 21.85 −0.57 0.04
CRISPLD2 18:10985131–11,050,908 13.29 8.90 −0.58 0.04
ANKRD52 5:57399491–57,415,909 9.99 6.62 −0.59 0.01
MED25 18:56632972–56,645,624 13.37 8.79 −0.61 0.04
NT5C2 26:23983197–24,080,607 33.01 21.57 −0.61 0.04
FOXO1 12:21915289–22,009,079 11.38 7.37 −0.63 0.01
PMP22 19:33357138–33,386,333 36.62 23.67 −0.63 0.01
RPS6KA3 X:130145854–130,305,125 90.58 58.17 −0.64 0.01
GADD45A 3:77972151–77,975,240 44.72 28.68 −0.64 0.01
SFMBT1 22:48444152–48,549,526 6.77 4.33 −0.65 0.04
LOC786565 7:54392624–54,437,291 39.05 24.83 −0.65 0.01
CIPC 10:89365865–89,381,544 55.74 35.31 −0.66 0.02
LOC782855 6:81188550–81,188,972 114.47 72.10 −0.67 0.02
LOC104973907 13:78185912–78,193,935 6.04 3.78 −0.68 0.01
DNAJA1 8:76107881–76,117,637 49.92 31.06 −0.68 0.01
NFIL3 8:87878330–87,893,188 21.56 13.36 −0.69 0.01
TMCO3 12:90698789–90,720,756 44.09 27.02 −0.71 0.01
EEF1A1 9:13230571–13,237,071 210.35 128.79 −0.71 0.04
RGCC 12:11625777–11,641,054 27.50 16.64 −0.72 0.01
MAOA X:105380190–105,462,564 9.07 5.47 −0.73 0.02
ARID5B 28:18003670–18,195,880 12.92 7.75 −0.74 0.01
SDC4 13:74391486–74,412,899 35.88 21.36 −0.75 0.01
CISH 22:50320204–50,325,618 11.74 6.97 −0.75 0.01
PDE4D 20:18748597–20,326,423 52.28 30.49 −0.78 0.01
ADAMTS20 5:37102284–37,333,841 4.75 2.75 −0.79 0.01
HSPH1 12:29820753–29,844,227 12.76 7.39 −0.79 0.01
KIAA1671 17:67368397–67,541,098 8.79 5.08 −0.79 0.01
CD160 3:21711758–21,725,178 3.40 1.88 −0.85 0.01
SRXN1 13:60944182–60,951,049 9.83 5.29 −0.89 0.01
LOC513548 9:88273884–88,299,107 9.26 4.94 −0.91 0.01
KLHL30 3:118105157–118,112,080 17.70 9.10 −0.96 0.01
TNFRSF12A 25:2435179–2,441,777 64.37 32.72 −0.98 0.01
CDKN1A 23:10551754–10,568,782 27.80 13.85 −1.01 0.01
MYBPH 16:760047–769,469 79.15 39.33 −1.01 0.02
SMPDL3A 9:28811575–28,829,543 11.21 5.53 −1.02 0.01
LOC104971692 3:66997750–67,054,450 169.28 80.23 −1.08 0.01
GFPT2 7:772036–817,756 5.13 2.42 −1.08 0.01
GNPTAB 5:65912911–65,996,254 13.49 6.24 −1.11 0.01
SPOCK2 28:28304693–28,329,944 6.10 2.82 −1.11 0.01
MICAL2 15:40914779–41,195,753 21.93 9.98 −1.14 0.01
RNF115 3:21626658–21,706,296 86.33 39.05 −1.14 0.01
LOC781186 20:3132654–3,195,037 34.42 15.42 −1.16 0.02
IL1RAP 1:77187089–77,343,695 2.36 1.04 −1.18 0.01
RGS2 16:13041891–13,045,246 14.64 6.41 −1.19 0.01
  1. *The fold-change estimates (relative expression) refer to the HIF group