International Journal of Genomics

Research Article

Transcriptome of the Deep-Sea Black Scabbardfish, Aphanopus carbo (Perciformes: Trichiuridae): Tissue-Specific Expression Patterns and Candidate Genes Associated to Depth Adaptation

Table 4

List of Pfam conserved domains that were tissue specifically expressed in Aphanopus carbo transcriptome. Frequencies and -values of tissue specificity analysis are indicated.
(a)
GonadsHeartLiver
Pfam IDDomainFreqPfam IDDomainFreqPfam IDDomainFreq
PF00100Zona pellucida173.15 10−13PF00011HSP2034.03 10−4PF00084Sushi141.44 10−10
PF00125Histone86.06 10−5PF13405EF hand 456.77 10−4PF00089Trypsin207.59 10−9
PF01400Astacin33.22 10−3PF00412LIM31.52 10−3PF00079Serpin125.63 10−6
PF00069Pkinase30.01PF05556Calsarcin33.60 10−3PF07678A2M comp41.35 10−4
PF00653BIR20.02PF01576Myosin tail 133.60 10−3PF01042Ribonuc L-PSP31.26 10−3
PF13424TPR 1220.02PF00056Ldh 1 N33.60 10−3PF00045Hemopexin31.26 10−3
PF13695zf-3CxxC20.02PF05300DUF73725.50 10−3PF00059Lectin C61.69 10−3
PF09360zf-CDGSH20.02PF00992Troponin46.40 10−3PF00701DHDPS44.64 10−3
PF01712dNK20.02PF00595PDZ36.82 10−3PF00386C1q86.63 10−3
PF00538Linker histone20.02PF00022Actin30.01PF00021UPAR LY650.01
PF10178DUF237220.02PF02874ATP-synt ab N20.02PF00754F5 F8 type C90.01
PF04856Securin20.02PF13895Ig 230.02PF08702Fib alpha20.01
PF00250Fork head20.02PF00191Annexin20.03PF03982DAGAT20.01
PF01498HTH Tnp Tc3 230.03PF00212ANP20.03PF01048PNP UDP 120.01
PF00268Ribonuc red sm20.06PF05347Complex1 LYR20.07PF01014Uricase20.01
(b)
MuscleBrainSpleen
Pfam IDDomainFreqPfam IDDomainFreqPfam IDDomainFreq
PF01410Troponin71.99 10−5PF01669Myelin MBP44.03 10−5PF00042Globin51.33 10−6
PF02807COLFI39.67 10−4PF01453B lectin26.44 10−3PF00078RVT 151.33 10−6
PF00041ATP-gua PtransN33.59 10−3PF00612IQ26.44 10−3PF00993MHC II alpha45.02 10−6
PF02453fn333.59 10−3PF11414Suppressor APC26.44 10−3PF07686V set52.49 10−6
PF13895Reticulon33.59 10−3PF05768DUF83626.44 10−3PF07654C1 set54.71 10−4
PF00365Ig_247.97 10−3PF05196PTN MK N26.44 10−3PF00089Trypsin52.01 10−3
PF01216PFK29.84 10−3PF04300FBA26.44 10−3PF01391Collagen22.30 10−3
PF01267Calsequestrin29.84 10−3PF00287Na K-ATPase26.44 10−3PF00240ubiquitin33.28 10−3
PF00261F-actin cap A29.84 10−3PF11032ApoM38.53 10−3PF09307MHC2-interact26.67 10−3
PF00856Tropomyosin29.84 10−3PF00061Lipocalin40.01PF00643Zf-B box20.01
PF01661SET29.84 10−3PF00007Cys knot20.02PF13445Zf-RING LisH20.01
PF01667Macro20.03PF01275Myelin PLP20.02PF01498HTH Tnp Tc3 220.02
PF00036Ribosomal S27e20.05PF00300His Phos 120.02PF02301HORMA10.05
PF01576efhand20.05PF00230MIP20.02PF14259RRM 610.05
PF01410Myosin_tail_120.08PF00091Tubulin30.02PF09004DUF189110.05