Transcript: Human XM_017027481.1

PREDICTED: Homo sapiens zinc finger protein 561 (ZNF561), transcript variant X10, mRNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
ZNF561 (93134)
Length:
4612
CDS:
485..1738

Additional Resources:

NCBI RefSeq record:
XM_017027481.1
NBCI Gene record:
ZNF561 (93134)

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_017027481.1, 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 TRCN0000229858 CACTACATCCACAAGTCTTAT pLKO_005 1399 CDS 100% 13.200 18.480 N ZNF561 n/a
2 TRCN0000107791 GCCTTAATGATCACATTCAAA pLKO.1 1161 CDS 100% 5.625 7.875 N ZNF561 n/a
3 TRCN0000229859 CTTCGTATCAAGGGTTGTATT pLKO_005 3207 3UTR 100% 13.200 10.560 N ZNF561 n/a
4 TRCN0000107794 GTCTTATTCAGCATACAAGAA pLKO.1 1413 CDS 100% 4.950 3.960 N ZNF561 n/a
5 TRCN0000229857 CATGCCTTAATGATCACATTC pLKO_005 1158 CDS 100% 10.800 7.560 N ZNF561 n/a
6 TRCN0000107792 CAAGTCTTATTCAGCATACAA pLKO.1 1410 CDS 100% 5.625 3.938 N ZNF561 n/a
7 TRCN0000107790 GCCTCATTTGTCAGTTTCAAA pLKO.1 3328 3UTR 100% 5.625 3.938 N ZNF561 n/a
8 TRCN0000218183 ATGCAAGGATATGAGTGTTAC pLKO_005 1711 CDS 100% 10.800 6.480 N ZNF561 n/a
9 TRCN0000229856 TGGAAACTCTGTGACTGTAAG pLKO_005 620 CDS 100% 10.800 6.480 N ZNF561 n/a
10 TRCN0000107793 GATACAAATGACAAGAGGCTA pLKO.1 592 CDS 100% 2.640 1.584 N ZNF561 n/a
11 TRCN0000007228 CACCTGTAATCCCAGCACTTT pLKO.1 3787 3UTR 100% 4.950 2.475 Y CFLAR n/a
12 TRCN0000166635 CACCTGTAATCCCAGCACTTT pLKO.1 3787 3UTR 100% 4.950 2.475 Y C19orf31 n/a
13 TRCN0000151775 CCCTATGAATGTAAGGAATGT pLKO.1 1283 CDS 100% 4.950 2.475 Y ZNF829 n/a
14 TRCN0000160334 CCTATGAATGTAAGGAATGTA pLKO.1 1284 CDS 100% 5.625 2.813 Y ZNF570 n/a
15 TRCN0000021429 CACACCTGTAATCCCAGCATT pLKO.1 3785 3UTR 100% 4.950 2.475 Y ERN2 n/a
16 TRCN0000138998 CACACCTGTAATCCCAGCATT pLKO.1 3785 3UTR 100% 4.950 2.475 Y P3H4 n/a
17 TRCN0000344020 CACACCTGTAATCCCAGCATT pLKO_005 3785 3UTR 100% 4.950 2.475 Y P3H4 n/a
Download CSV

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_017027481.1, 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.

Download CSV

All ORF constructs matching this transcript

Clone ID DNA Barcode Vector Sequenced %[?] Nuc. Match %[?] Prot. Match %[?] Epitope Tag Match Diffs[?] Addgene[?]
1 ccsbBroadEn_12992 pDONR223 100% 100% 100% None n/a
2 ccsbBroad304_12992 pLX_304 0% 100% 100% V5 n/a
3 TRCN0000470490 CAAGAATAGAAAATAGCTAACTTC pLX_317 40.7% 100% 100% V5 n/a
4 ccsbBroadEn_03461 pDONR223 100% 66% 61.8% None (many diffs) n/a
5 ccsbBroad304_03461 pLX_304 0% 66% 61.8% V5 (many diffs) n/a
6 TRCN0000466378 TGATTTCAACACTTCATTTTCAGG pLX_317 29.2% 66% 61.8% V5 (many diffs) n/a
Download CSV