Table 3

Neural crest associated Pfam domains emerging in vertebrates

Group


Symbol

Gene

blast

pro

euk

met

deu

chr

ver

mam


Slc12a6

Solute carrier family 12, member 6

pro

AA_permease

-

-

-

-

KCl_Cotrans_1

-

Apc

Adenomatosis polyposis coli

pro

-

Arm

APC_crr APC_15aa

-

-

EB1_binding APC_basic SAMP

-

Asph

Aspartate-beta-hydroxylase

pro

Asp_Arg_Hydrox

-

-

-

-

Asp-B-Hydro_N

-

Top2b

Topoisomerase (DNA) II beta

pro

DNA_topoisoIV DNA_gyraseB HATPase_c

-

-

-

-

DTHCT

-

Nef3

Neurofilament 3, medium

pro

-

-

Filament

-

-

Filament_head

-

Nefl

Neurofilament, light polypeptide

pro

-

-

Filament

-

-

Filament_head

-

Cryab

Crystallin, alpha B

pro

HSP20

-

-

-

-

Crystallin

-

Rabggta

Rab geranylgeranyl transferase, a subunit

pro

LRR_1

LRR_2 PPTA

-

-

-

RabGGT_insert

-


Otx1

Orthodenticle homolog 1

euk

-

Homeobox

-

-

-

TF_Otx

-

Otx2

Orthodenticle homolog 2

euk

-

Homeobox

-

-

-

TF_Otx

-

Zfp98

Zinc finger protein 98

euk

zf-C2H2

-

-

-

-

SCAN

-


Prph1

Peripherin 1

met

-

-

Filament

-

-

Filament_head

-

Gfra1

Glial cell line derived neurotrophic factor family receptor alpha 1

met

-

-

-

-

-

GDNF

-

Cdx1

Caudal type homeo box 1

met

-

Homeobox

-

-

-

Caudal_act

-

Cdx2

Caudal type homeo box 2

met

-

Homeobox

-

-

-

Caudal_act

-

Hoxb9

Homeo box B9

met

-

Homeobox

-

-

-

Hox9_act

-

Hoxa9

Homeo box A9

met

-

Homeobox

-

-

-

Hox9_act

-

Nr3c1

Nuclear receptor subfamily 3, group C, member 1

met

-

-

Hormone_recep zf-C4

-

-

GCR

-

Pdgfa

Platelet derived growth factor, alpha

met

-

-

PDGF

-

-

PDGF_N

-


Bdnf

Brain derived neurotrophic factor

deu

-

-

-

-

-

NGF

-

Ntf3

Neurotropin 3

deu

-

-

-

-

-

NGF

-

P2rx7

Purinergic receptor P2X, ligand-gated ion channel, 7

deu

-

-

-

-

-

P2X_receptor

-


Hapln1

Hyaluronan and proteoglycan link protein 1

cor

-

-

V-set

-

-

Xlink

-


Nppc

Natriuretic peptide precursor type C

ver

-

-

-

-

-

ANP

-

Calca

Calcitonin/calcitonin-related polypeptide, alpha

ver

-

-

-

-

-

Calc_CGRP_IAPP

-

Iapp

Islet amyloid polypeptide

ver

-

-

-

-

-

Calc_CGRP_IAPP

-

Cart

Cocaine and amphetamine regulated transcript

ver

-

-

-

-

-

CART

-

Edn1

Endothelin 1

ver

-

-

-

-

-

Endothelin

-

Edn3

Endothelin 3

ver

-

-

-

-

-

Endothelin

-

Nrg1

Neuregulin 1

ver

I-set

EGF

ig V-set

-

-

Neuregulin

-

Pomc1

Pro-opiomelanocortin-alpha

ver

-

-

-

-

-

Op_neuropeptide ACTH_domain

-

Pthlh

Parathyroid hormone-like peptide

ver

-

-

-

-

-

Parathyroid

-

Pth

Parathyroid hormone

ver

-

-

-

-

-

Parathyroid

-

Pde6g

Phosphodiesterase 6G, cGMP-specific, rod, gamma

ver

-

-

-

-

-

PDE6_gamma

-


a

Nonagouti

mam

-

-

-

-

-

Agouti

-

Osm

Oncostatin M

mam

-

-

-

-

-

LIF_OSM

-

Kitl

Kit ligand

mam

-

-

-

-

-

SCF

-


The table summarizes a list of those neural crest genes having at least one Pfam domain appearing first in vertebrates. All the corresponding Pfam domains of these genes, when these domains have appeared, and the classification of the genes according to our previous sequential blast analysis (blast) are indicated. cor, chordata; deu, deuterostomia; euk, eukaryota; mam, mammalia; met, metazoa; pro, prokaryota; ver, vertebrata.

Martinez-Morales et al. Genome Biology 2007 8:R36   doi:10.1186/gb-2007-8-3-r36

Open Data