Guide to the Human Genome
Home | Table of Contents | Search text | Search genes | Search sequences | Purchase | FAQ | Blog | Help
Name: COL13A1 Sequence: fasta or formatted (668aa) NCBI GI: 22027601
Description:

alpha 1 type XIII collagen isoform 15

Referenced in:

Collagen

Other entries for this name:
alt prot [717aa] alpha 1 type XIII collagen isoform 20
alt prot [717aa] alpha 1 type XIII collagen isoform 1
alt prot [705aa] alpha 1 type XIII collagen isoform 2
alt prot [700aa] alpha 1 type XIII collagen isoform 3
alt prot [698aa] alpha 1 type XIII collagen isoform 4
alt prot [695aa] alpha 1 type XIII collagen isoform 5
alt prot [702aa] alpha 1 type XIII collagen isoform 6
alt prot [703aa] alpha 1 type XIII collagen isoform 7
alt prot [705aa] alpha 1 type XIII collagen isoform 8
alt prot [688aa] alpha 1 type XIII collagen isoform 9
alt prot [676aa] alpha 1 type XIII collagen isoform 10
alt prot [686aa] alpha 1 type XIII collagen isoform 11
alt prot [691aa] alpha 1 type XIII collagen isoform 12
alt prot [690aa] alpha 1 type XIII collagen isoform 13
alt prot [664aa] alpha 1 type XIII collagen isoform 14
alt prot [660aa] alpha 1 type XIII collagen isoform 16
alt prot [657aa] alpha 1 type XIII collagen isoform 17
alt prot [655aa] alpha 1 type XIII collagen isoform 18
alt prot [610aa] alpha 1 type XIII collagen isoform 19
Composition:

amino acid map
 Amino acid        Percentage    Count  Longest homopolymer
 A alanine             6.9         46           3
 C cysteine            1.2          8           1
 D aspartate           3.3         22           1
 E glutamate           6.0         40           1
 F phenylalanine       0.7          5           1
 G glycine            26.0        174           3
 H histidine           1.6         11           1
 I isoleucine          2.7         18           2
 K lysine              6.4         43           2
 L leucine             7.0         47           2
 M methionine          1.9         13           1
 N asparagine          1.3          9           1
 P proline            17.2        115           2
 Q glutamine           4.2         28           2
 R arginine            4.6         31           4
 S serine              3.3         22           2
 T threonine           2.4         16           1
 V valine              2.2         15           1
 W tryptophan          0.3          2           1
 Y tyrosine            0.4          3           1
Comparative genomics:

Search single species RefSeq proteins at NCBI
   H. sapiens
   M. musculus
   D. rerio
   C. intestinalis
   S. purpuratus
   D. melanogaster
   C. elegans
   A. thaliana
   S. cerevisiae
   E. coli W3110
   A. pernix K1

Search summary

comparative genomics plot

   Figure data

Additional searches of
RefSeq proteins at NCBI

   All
   Eukaryotes
   Bacteria
   Archaea
   Viruses
   Primates
   Mammals
   Vertebrates

Related human proteins:
Protein          Relative score         Description

Self-match            1.000   alpha 1 type XIII collagen isoform 15 
COL13A1               0.991   alpha 1 type XIII collagen isoform 13 
COL13A1               0.987   alpha 1 type XIII collagen isoform 5 
COL13A1               0.985   alpha 1 type XIII collagen isoform 6 
COL13A1               0.984   alpha 1 type XIII collagen isoform 8 
COL13A1               0.978   alpha 1 type XIII collagen isoform 1 
COL13A1               0.972   alpha 1 type XIII collagen isoform 20 
COL13A1               0.970   alpha 1 type XIII collagen isoform 12 
COL13A1               0.964   alpha 1 type XIII collagen isoform 7 
COL13A1               0.963   alpha 1 type XIII collagen isoform 11 
COL13A1               0.957   alpha 1 type XIII collagen isoform 4 
COL13A1               0.954   alpha 1 type XIII collagen isoform 10 
COL13A1               0.954   alpha 1 type XIII collagen isoform 2 
COL13A1               0.945   alpha 1 type XIII collagen isoform 3 
COL13A1               0.930   alpha 1 type XIII collagen isoform 14 
COL13A1               0.924   alpha 1 type XIII collagen isoform 9 
COL13A1               0.915   alpha 1 type XIII collagen isoform 17 
COL13A1               0.911   alpha 1 type XIII collagen isoform 18 
COL13A1               0.891   alpha 1 type XIII collagen isoform 19 
COL13A1               0.885   alpha 1 type XIII collagen isoform 16 
COL25A1               0.321   collagen, type XXV, alpha 1 isoform 1 
COL4A5                0.301   type IV collagen alpha 5 isoform 1 precursor 
COL4A5                0.299   type IV collagen alpha 5 isoform 2 precursor 
COL4A5                0.299   type IV collagen alpha 5 isoform 3 precursor 
COL5A1                0.295   alpha 1 type V collagen preproprotein 
COL5A3                0.292   collagen, type V, alpha 3 preproprotein 
COL5A2                0.290   alpha 2 type V collagen preproprotein 
COL1A1                0.290   alpha 1 type I collagen preproprotein 
COL25A1               0.288   collagen, type XXV, alpha 1 isoform 2 
COL3A1                0.287   collagen type III alpha 1 preproprotein 
Human BLASTP results (used to prepare the table)

Gene descriptions are from NCBI RefSeq. Search results were obtained with NCBI BLAST and RefSeq entries. When identical proteins are present, the self-match may not be listed first in BLASTP output. In such cases, the table above has been reordered to place it first.

See About the Figures for the scoring system used in the figure above right. The same scoring system was used in the table of BLASTP results.


Home | Table of Contents | Search text | Search genes | Search sequences | Purchase | FAQ | Blog | Help

Guide to the Human Genome
Copyright © 2010 by Stewart Scherer. All rights reserved.

CSHL Press