International Journal of Genomics / 2014 / Article / Tab 4 / 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) Gonads Heart Liver Pfam ID Domain Freq Pfam ID Domain Freq Pfam ID Domain Freq PF00100 Zona pellucida 17 3.15 10−13 PF00011 HSP20 3 4.03 10−4 PF00084 Sushi 14 1.44 10−10 PF00125 Histone 8 6.06 10−5 PF13405 EF hand 4 5 6.77 10−4 PF00089 Trypsin 20 7.59 10−9 PF01400 Astacin 3 3.22 10−3 PF00412 LIM 3 1.52 10−3 PF00079 Serpin 12 5.63 10−6 PF00069 Pkinase 3 0.01 PF05556 Calsarcin 3 3.60 10−3 PF07678 A2M comp 4 1.35 10−4 PF00653 BIR 2 0.02 PF01576 Myosin tail 1 3 3.60 10−3 PF01042 Ribonuc L-PSP 3 1.26 10−3 PF13424 TPR 12 2 0.02 PF00056 Ldh 1 N 3 3.60 10−3 PF00045 Hemopexin 3 1.26 10−3 PF13695 zf-3CxxC 2 0.02 PF05300 DUF737 2 5.50 10−3 PF00059 Lectin C 6 1.69 10−3 PF09360 zf-CDGSH 2 0.02 PF00992 Troponin 4 6.40 10−3 PF00701 DHDPS 4 4.64 10−3 PF01712 dNK 2 0.02 PF00595 PDZ 3 6.82 10−3 PF00386 C1q 8 6.63 10−3 PF00538 Linker histone 2 0.02 PF00022 Actin 3 0.01 PF00021 UPAR LY6 5 0.01 PF10178 DUF2372 2 0.02 PF02874 ATP-synt ab N 2 0.02 PF00754 F5 F8 type C 9 0.01 PF04856 Securin 2 0.02 PF13895 Ig 2 3 0.02 PF08702 Fib alpha 2 0.01 PF00250 Fork head 2 0.02 PF00191 Annexin 2 0.03 PF03982 DAGAT 2 0.01 PF01498 HTH Tnp Tc3 2 3 0.03 PF00212 ANP 2 0.03 PF01048 PNP UDP 1 2 0.01 PF00268 Ribonuc red sm 2 0.06 PF05347 Complex1 LYR 2 0.07 PF01014 Uricase 2 0.01
(b) Muscle Brain Spleen Pfam ID Domain Freq Pfam ID Domain Freq Pfam ID Domain Freq PF01410 Troponin 7 1.99 10−5 PF01669 Myelin MBP 4 4.03 10−5 PF00042 Globin 5 1.33 10−6 PF02807 COLFI 3 9.67 10−4 PF01453 B lectin 2 6.44 10−3 PF00078 RVT 1 5 1.33 10−6 PF00041 ATP-gua PtransN 3 3.59 10−3 PF00612 IQ 2 6.44 10−3 PF00993 MHC II alpha 4 5.02 10−6 PF02453 fn3 3 3.59 10−3 PF11414 Suppressor APC 2 6.44 10−3 PF07686 V set 5 2.49 10−6 PF13895 Reticulon 3 3.59 10−3 PF05768 DUF836 2 6.44 10−3 PF07654 C1 set 5 4.71 10−4 PF00365 Ig_2 4 7.97 10−3 PF05196 PTN MK N 2 6.44 10−3 PF00089 Trypsin 5 2.01 10−3 PF01216 PFK 2 9.84 10−3 PF04300 FBA 2 6.44 10−3 PF01391 Collagen 2 2.30 10−3 PF01267 Calsequestrin 2 9.84 10−3 PF00287 Na K-ATPase 2 6.44 10−3 PF00240 ubiquitin 3 3.28 10−3 PF00261 F-actin cap A 2 9.84 10−3 PF11032 ApoM 3 8.53 10−3 PF09307 MHC2-interact 2 6.67 10−3 PF00856 Tropomyosin 2 9.84 10−3 PF00061 Lipocalin 4 0.01 PF00643 Zf-B box 2 0.01 PF01661 SET 2 9.84 10−3 PF00007 Cys knot 2 0.02 PF13445 Zf-RING LisH 2 0.01 PF01667 Macro 2 0.03 PF01275 Myelin PLP 2 0.02 PF01498 HTH Tnp Tc3 2 2 0.02 PF00036 Ribosomal S27e 2 0.05 PF00300 His Phos 1 2 0.02 PF02301 HORMA 1 0.05 PF01576 efhand 2 0.05 PF00230 MIP 2 0.02 PF14259 RRM 6 1 0.05 PF01410 Myosin_tail_1 2 0.08 PF00091 Tubulin 3 0.02 PF09004 DUF1891 1 0.05