REPBASE UPDATE

Reference collections represent published examples or consensus sequences of repetitive elements from different eukaryotic species.

All reference collections are in flat file FASTA format.

Index to reference collections:

angrep.ref

Reference collection of A. gambiae repetitive elements.

(Release 1.2.2)

athrep.ref

Reference collection of A. thaliana repetitive elements.

(Release 6.4.4)

cbrrep.ref

Reference collection of Caenorhabditis briggsae repetitive elements.

(Release 1.1.4)

celrep.ref

Reference collection of C. elegans repetitive elements.

(Release 4.3.4)

chlrep.ref

Reference collection of Chlamydomonas reinhardtii repetitive elements.

(Release 1.0.5)

cinrep.ref

Reference collection of C. intestinalis repetitive elements.

(Release 1.0.4)

cinunc.ref

C. intestinalis unclassified.

diarep.ref

Diatom thalassiostra pseudonana repetitive elements.

(Release 1.0.3)

drorep.ref

Reference collection of D. melanogaster repetitive elements.

(Release 4.6.0)

fngrep.ref

Reference collection of fungi repetitive sequences

(Release 1.0.4)

fugrep.ref

Reference collection of fugu repetitive elements.

(Release 1.0.1)

humrep.ref

Reference collection of human repetitive elements.

(Release 8.3.2)

invrep.ref

Reference collection of invertebrate repetitive elements; not including A. gambiae, C. elegans or D. melanogaster.

(Release 4.3.1)

mamrep.ref

Reference collection of mammalian repetitive elements.

(Release 5.4.3)

oryrep.ref

Reference collection of O. sativa repetitive elements.

(Release 1.2.1)

plnrep.ref

Reference collection of plant repetitive elements; not including A. thaliana or O. sativa.

(Release 4.5.4)

prirep.ref

Reference collection of repetitive sequences from non-human primates

(Release 1.0.3)

pseudo.ref

Reference collection of pseudogene repetitive elements.

(Release 1.1.4)

rodrep.ref

Reference collection of rodent repetitive elements.

(Release 3.5.6)

simple.ref

Reference collection of the most abundant simple sequence repeats in primates.

(Release 3.2)

vrtrep.ref

Reference collection of vertebrate repetitive elements; not including zebra fish.

(Release 4.01.10)

zebrep.ref

Reference collection of zebra fish repetitive elements.

(Release 4.2.7)

zebunc.ref

Zebrafish unclassified.

humsub.ref

Reference collection of human repetitive subfamilies.

(Release 1.1.3)

invsub.ref

Reference collection of invertebrate repetitive subfamilies.

(Release 1.0.0)

mamsub.ref

Reference collection of mammalian repetitive subfamilies.

(Release 1.0.0)

rodsub.ref

Reference collection of rodent repetitive subfamilies.

(Release 1.0.1)

mousub.ref

Reference collection of mouse repetitive subfamilies.

(Release 1.0.1)

ratsub.ref

Reference collection of rat repetitive subfamilies.

(Release 1.0.1)

appendix/

Appendices to the Reference collection of repetitive elements. Contain sequences that have been part of the Reference collection in the past but have since been removed or are alternate submissions for existing data.

Direct comments and questions to:

Jerzy Jurka
jurka@gnomic.stanford.edu
jurka@girinst.org

Webmaster
webmaster@girinst.org