Transcript: Human XM_005270477.3

PREDICTED: Homo sapiens collagen type VIII alpha 2 chain (COL8A2), transcript variant X1, mRNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
COL8A2 (1296)
Length:
5231
CDS:
559..2901

Additional Resources:

NCBI RefSeq record:
XM_005270477.3
NBCI Gene record:
COL8A2 (1296)

sgRNA constructs matching this transcript (CRISPRko, NGG PAM)

This list includes CRISPRko constructs with 100% (20mer + NGG) sequence match to the coding regions of this transcript.

No results found.

shRNA constructs matching this transcript with 100% SDR[?] match

This list includes all shRNAs that have a perfect SDR[?] match to Human XM_005270477.3, regardless of what transcript they were originally designed to target. For example, this list can include shRNAs that were originally designed to target: (i) a different isoform or obsolete version of this transcript (as annotated by NCBI), (ii) a transcript of an orthologous gene (in this collection, generally human-to-mouse or mouse-to-human), or (iii) a transcript of a different gene (from the same or different taxon).

Clone ID Target Seq Vector Match Position Match Region[?] SDR Match %[?] Intrinsic Score[?] Adjusted Score[?] Matches Other Human Gene?[?] Orig. Target Gene[?] Addgene[?]
1 TRCN0000371819 TCGGGCATGCCCGTGAAATTT pLKO_005 2551 CDS 100% 15.000 21.000 N COL8A2 n/a
2 TRCN0000083090 CACCTATACCTACGATGAGTA pLKO.1 2721 CDS 100% 4.950 6.930 N COL8A2 n/a
3 TRCN0000083091 CCGGCCACCTATACCTACGAT pLKO.1 2716 CDS 100% 1.000 1.400 N COL8A2 n/a
4 TRCN0000371820 CATGCAGGCTGAGATTGTTTC pLKO_005 3052 3UTR 100% 10.800 7.560 N COL8A2 n/a
5 TRCN0000083088 GCCCACAACTTCTCCAAACAA pLKO.1 4503 3UTR 100% 5.625 3.938 N COL8A2 n/a
6 TRCN0000371878 TTGGCCCGAGGAGACTAACTT pLKO_005 3019 3UTR 100% 5.625 3.938 N COL8A2 n/a
7 TRCN0000083089 AGGCATTACTATCCCTGGAAA pLKO.1 1290 CDS 100% 4.950 3.465 N COL8A2 n/a
8 TRCN0000083092 CAGTACCTGGAAATGCCTCTA pLKO.1 973 CDS 100% 4.050 2.835 N COL8A2 n/a
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shRNA constructs with at least a near match to this transcript

This list includes shRNAs that have at least a >84% (16 of 19 bases) SDR[?] match to the transcript XM_005270477.3, regardless of what transcript they were originally designed to target. For example, this list can include shRNAs that were originally designed to target: (i) a different isoform or obsolete version of this transcript (as annotated by NCBI), (ii) a transcript of an orthologous gene (in this collection, generally human-to-mouse or mouse-to-human), or (iii) a transcript of a different gene (from the same or different taxon). NOTE: this download is a superset of the above result set.

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All ORF constructs matching this transcript

Clone ID DNA Barcode Vector Sequenced %[?] Nuc. Match %[?] Prot. Match %[?] Epitope Tag Match Diffs[?] Addgene[?]
1 ccsbBroadEn_10741 pDONR223 100% 54.7% 54.7% None 1_231del;1000_1827del n/a
2 ccsbBroad304_10741 pLX_304 0% 54.7% 54.7% V5 1_231del;1000_1827del n/a
3 TRCN0000471426 AGATATAACTATTCGACCGTACTC pLX_317 33.8% 54.7% 54.7% V5 1_231del;1000_1827del n/a
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