PMID- 10429945
OWN - NLM
STAT- MEDLINE
DCOM- 19991026
LR  - 20191103
IS  - 0945-053X (Print)
IS  - 0945-053X (Linking)
VI  - 18
IP  - 3
DP  - 1999 Jun
TI  - Complete exon-intron organization and chromosomal location of the gene for mouse 
      type XIII collagen (col13a1) and comparison with its human homologue.
PG  - 261-74
AB  - Recent findings indicate that type XIII collagen is a transmembrane protein with 
      a short N-terminal sytocsolic domain, a single transmembrane domain and a large, 
      mainly collagenous ectodomain. The complete exon-intron structure of the gene
      coding for the mouse alpha1(XIII) collagen chain, col13a1, has now been
      characterized from genomic clones spanning over 180 kilobases (kb) and shown to
      be approximately 135 kb in size and to contain 42 exons varying between 8 base
      pairs (bp), the shortest exon in the genes encoding the various collagens, and
      836 bp. Nuclease S1 mapping and 5'RACE resulted in identification of multiple
      transcription initiation points in the mouse gene, ranging between 470 and 548 bp
      upstream from the initiation methionine. This is in good agreement with a
      recently identified human EST clone extending 537 bp upstream from the initiation
      methionine. The 836-bp first exon of the mouse gene covers both the long 5'
      untranslated region and also a 36-residue cytosolic portion, a 23-residue
      transmembrane domain, and 37 residues of the 60-residue non-collagenous
      ectodomain immediately adjacent to the plasma membrane. One striking feature of
      the exons encoding solely collagenous sequences is the abundance of 27-bp exons, 
      half the ancestral 54-bp size characteristic of fibrillar collagen genes, while
      the others vary between 8 and 144 bp, including instances of 36-, 45- and 54-bp
      exons. Determination of approximately 2.6 kb of sequences upstream of the
      initiation methionine of both the mouse and human genes and the identification of
      a clone containing four exons and spanning a gap in the previously characterized 
      human clones allowed detailed comparison of the two genes. The exon-intron
      structures were found to be completely conserved between the species, and both
      genes have their 5' untranslated region preceded by a highly homologous apparent 
      promoter region of approximately 350 bp containing a modified TATAA motif and
      several GC boxes. The chromosomal location of the mouse gene was determined by
      SSCP and fluorescence in situ hybridization and found to be at chromosome 10,
      band 4, between markers D1OMit5 -2.3 +/- 1.6 cM -col13a1 - 3.4+/-1.9 cM -
      D1OMit15. This result indicates that the mouse type XIII collagen gene and its
      human counterpart are located in chromosomal segments with conserved syntenies
      (The GenBank accession numbers for the mouse gene are AF063666-AF063693. The new 
      GenBank accession number for the 5' end of the human type XIII collagen gene is
      AF071009).
FAU - Kvist, A P
AU  - Kvist AP
AD  - Biocenter and Department of Medical Biochemistry, University of Oulu, Finland.
FAU - Latvanlehto, A
AU  - Latvanlehto A
FAU - Sund, M
AU  - Sund M
FAU - Horelli-Kuitunen, N
AU  - Horelli-Kuitunen N
FAU - Rehn, M
AU  - Rehn M
FAU - Palotie, A
AU  - Palotie A
FAU - Beier, D
AU  - Beier D
FAU - Pihlajaniemi, T
AU  - Pihlajaniemi T
LA  - eng
SI  - GENBANK/AF063666
SI  - GENBANK/AF063667
SI  - GENBANK/AF063668
SI  - GENBANK/AF063669
SI  - GENBANK/AF063670
SI  - GENBANK/AF063671
SI  - GENBANK/AF063672
SI  - GENBANK/AF063673
SI  - GENBANK/AF063674
SI  - GENBANK/AF063675
SI  - GENBANK/AF063676
SI  - GENBANK/AF063677
SI  - GENBANK/AF063678
SI  - GENBANK/AF063679
SI  - GENBANK/AF063680
SI  - GENBANK/AF063681
SI  - GENBANK/AF063682
SI  - GENBANK/AF063683
SI  - GENBANK/AF063684
SI  - GENBANK/AF063685
SI  - GENBANK/AF063686
SI  - GENBANK/AF063687
SI  - GENBANK/AF063688
SI  - GENBANK/AF063689
SI  - GENBANK/AF063690
SI  - GENBANK/AF063691
SI  - GENBANK/AF063692
SI  - GENBANK/AF063693
SI  - GENBANK/AF071009
SI  - GENBANK/AH008079
GR  - R01 HD29028/HD/NICHD NIH HHS/United States
GR  - R01 HG00951/HG/NHGRI NIH HHS/United States
PT  - Comparative Study
PT  - Journal Article
PT  - Research Support, Non-U.S. Gov't
PT  - Research Support, U.S. Gov't, P.H.S.
PL  - Netherlands
TA  - Matrix Biol
JT  - Matrix biology : journal of the International Society for Matrix Biology
JID - 9432592
RN  - 0 (DNA, Complementary)
RN  - 9007-34-5 (Collagen)
SB  - IM
MH  - Animals
MH  - Base Sequence
MH  - Binding Sites
MH  - Chromosome Mapping
MH  - Collagen/*genetics
MH  - DNA, Complementary
MH  - Electrophoresis, Gel, Pulsed-Field
MH  - *Exons
MH  - Humans
MH  - *Introns
MH  - Mice
MH  - Molecular Sequence Data
MH  - Promoter Regions, Genetic
MH  - Restriction Mapping
MH  - Transcription, Genetic
EDAT- 1999/08/03 00:00
MHDA- 1999/08/03 00:01
CRDT- 1999/08/03 00:00
PHST- 1999/08/03 00:00 [pubmed]
PHST- 1999/08/03 00:01 [medline]
PHST- 1999/08/03 00:00 [entrez]
AID - S0945-053X(99)00018-9 [pii]
AID - 10.1016/s0945-053x(99)00018-9 [doi]
PST - ppublish
SO  - Matrix Biol. 1999 Jun;18(3):261-74. doi: 10.1016/s0945-053x(99)00018-9.