Transcript: Human NM_001256171.1

Homo sapiens zinc finger protein 85 (ZNF85), transcript variant 3, mRNA.

Source:
NCBI, updated 2019-09-22
Taxon:
Homo sapiens (human)
Gene:
ZNF85 (7639)
Length:
2435
CDS:
149..2026

Additional Resources:

NCBI RefSeq record:
NM_001256171.1
NBCI Gene record:
ZNF85 (7639)

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 NM_001256171.1, 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 TRCN0000434187 GTCACACTTTAGGTAAGATAA pLKO_005 2211 3UTR 100% 13.200 9.240 N ZNF85 n/a
2 TRCN0000015351 ACACTCTTCAACCCTTACTAA pLKO.1 1462 CDS 100% 5.625 3.938 N ZNF85 n/a
3 TRCN0000015350 CATGAGATCATGGTGGCCAAA pLKO.1 350 CDS 100% 4.050 2.835 N ZNF85 n/a
4 TRCN0000015349 GCCTAACTGAACATAGCAGAA pLKO.1 801 CDS 100% 4.050 2.835 N ZNF85 n/a
5 TRCN0000015348 CCTGAAAGATGTGACAATAAT pLKO.1 2103 3UTR 100% 15.000 9.000 N ZNF85 n/a
6 TRCN0000431759 CATGAGATAAGACATACTAAA pLKO_005 728 CDS 100% 13.200 7.920 N ZNF85 n/a
7 TRCN0000015352 CGGGAGAGAAACCTTACAAAT pLKO.1 912 CDS 100% 13.200 7.920 N ZNF85 n/a
8 TRCN0000430017 CCAGTCCTCAAACCTTATTAA pLKO_005 958 CDS 100% 15.000 7.500 Y ZNF431 n/a
9 TRCN0000344450 GACACTGCACAGCGGAATTTA pLKO_005 212 CDS 100% 15.000 7.500 Y ZNF737 n/a
10 TRCN0000236731 ACCTTACTACACATAAGATAA pLKO_005 1221 CDS 100% 13.200 6.600 Y ZNF98 n/a
11 TRCN0000096537 CTGGAGAGAAACCCTACAAAT pLKO.1 996 CDS 100% 13.200 6.600 Y Zfp934 n/a
12 TRCN0000235358 CTGGAGAGAAACCCTACAAAT pLKO_005 996 CDS 100% 13.200 6.600 Y 2810408B13Rik n/a
13 TRCN0000244342 CTGGAGAGAAACCCTACAAAT pLKO_005 996 CDS 100% 13.200 6.600 Y EG668616 n/a
14 TRCN0000146802 CCTCAAACCTTACTACACATA pLKO.1 1215 CDS 100% 4.950 2.475 Y ZNF714 n/a
15 TRCN0000018502 GATGTTAGAGAACTACAGAAA pLKO.1 244 CDS 100% 4.950 2.475 Y ZNF493 n/a
16 TRCN0000243782 TGGAGAGAAACCCTATGAATA pLKO_005 1585 CDS 100% 13.200 6.600 Y Zfp977 n/a
17 TRCN0000158848 GAGAAACCTTACAAATGTGAT pLKO.1 917 CDS 100% 4.950 2.475 Y ZNF28 n/a
18 TRCN0000149073 GCAAAGCCTTTAACCAGTCTT pLKO.1 1869 CDS 100% 4.950 2.475 Y ZNF714 n/a
19 TRCN0000019028 GCCTTTAACCAGTCCTCAATT pLKO.1 950 CDS 100% 13.200 6.600 Y ZNF92 n/a
20 TRCN0000240204 ATACGGGAGAGAAACCTTATG pLKO_005 909 CDS 100% 10.800 5.400 Y EG665449 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 NM_001256171.1, 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.

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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_11232 pDONR223 100% 85% 83% None (many diffs) n/a
2 ccsbBroad304_11232 pLX_304 0% 85% 83% V5 (many diffs) n/a
3 TRCN0000476048 TACTATCCCAATAGAAACACCTCC pLX_317 21.8% 85% 83% V5 (many diffs) n/a
4 ccsbBroadEn_15278 pDONR223 59.5% 75.4% 66.6% None (many diffs) n/a
5 ccsbBroad304_15278 pLX_304 0% 75.4% 66.6% V5 (many diffs) n/a
6 ccsbBroadEn_02188 pDONR223 100% 73.2% 64.4% None (many diffs) n/a
7 ccsbBroad304_02188 pLX_304 0% 73.2% 64.4% V5 (many diffs) n/a
8 TRCN0000476436 TCCGTGTTGGTCAAGCGACGCGCC pLX_317 12.5% 73.2% 64.4% V5 (many diffs) n/a
9 ccsbBroadEn_09784 pDONR223 100% 71.1% 61.5% None (many diffs) n/a
10 ccsbBroad304_09784 pLX_304 0% 71.1% 61.5% V5 (many diffs) n/a
11 TRCN0000478115 ATTTTTATATATACCACTCGGCCC pLX_317 19.7% 71.1% 61.5% V5 (many diffs) n/a
12 ccsbBroadEn_15167 pDONR223 53.6% 70.7% 30.4% None (many diffs) n/a
13 ccsbBroad304_15167 pLX_304 0% 70.7% 30.4% V5 (not translated due to prior stop codon) (many diffs) n/a
14 ccsbBroadEn_10024 pDONR223 100% 70.4% 61% None (many diffs) n/a
15 ccsbBroad304_10024 pLX_304 0% 70.4% 61% V5 (many diffs) n/a
16 TRCN0000466950 AAAAATGGGCGCTCTGAGACACAC pLX_317 21.1% 70.4% 61% V5 (many diffs) n/a
17 ccsbBroadEn_08635 pDONR223 100% 68.6% 57.7% None (many diffs) n/a
18 ccsbBroad304_08635 pLX_304 0% 68.6% 57.7% V5 (many diffs) n/a
19 TRCN0000469248 TACCCGCTTGGCTTTAAAAACCAA pLX_317 37.7% 53% 45.1% V5 (many diffs) n/a
20 ccsbBroadEn_15273 pDONR223 50.9% 67% 57.2% None (many diffs) n/a
21 ccsbBroad304_15273 pLX_304 0% 67% 57.2% V5 (many diffs) n/a
22 TRCN0000472761 GCGGTTCAATGTTGTAGTCTTGTG pLX_317 63.8% 29.9% 25.5% V5 (not translated due to frame shift) (many diffs) n/a
23 ccsbBroadEn_07157 pDONR223 100% 61.4% 53.8% None (many diffs) n/a
24 ccsbBroad304_07157 pLX_304 0% 61.4% 53.8% V5 (many diffs) n/a
25 TRCN0000475452 TAAAACTTCAACTTGGTTTCCTTC pLX_317 10.2% 61.4% 53.8% V5 (many diffs) n/a
26 ccsbBroadEn_09302 pDONR223 100% 61.4% 52% None (many diffs) n/a
27 ccsbBroad304_09302 pLX_304 0% 61.4% 52% V5 (many diffs) n/a
28 TRCN0000478136 TCTGGATTCCTTTAAAAGGATTTC pLX_317 23% 61.4% 52% V5 (many diffs) n/a
29 ccsbBroadEn_12296 pDONR223 100% 57.9% 47.8% None (many diffs) n/a
30 TRCN0000478211 CAAATCTCTGTTGACCAGACGGTG pLX_317 19.4% 57.9% 47.8% V5 (many diffs) n/a
31 TRCN0000477054 GAGCCAATTTATTAAACTTAACTA pLX_317 14.1% 51.4% 43.6% V5 (many diffs) n/a
32 ccsbBroadEn_15067 pDONR223 92.3% 51.4% 43.8% None (many diffs) n/a
33 ccsbBroad304_15067 pLX_304 0% 51.4% 43.8% V5 (not translated due to prior stop codon) (many diffs) n/a
34 ccsbBroadEn_11235 pDONR223 100% 23.7% 19.3% None (many diffs) n/a
35 ccsbBroad304_11235 pLX_304 0% 23.7% 19.3% V5 (many diffs) n/a
36 TRCN0000481650 TTTATCAAAGGAATCCCCAATTTT pLX_317 100% 23.7% 19.3% V5 (many diffs) n/a
37 ccsbBroadEn_05180 pDONR223 100% 12.9% 10.1% None (many diffs) n/a
38 ccsbBroad304_05180 pLX_304 0% 12.9% 10.1% V5 (many diffs) n/a
39 TRCN0000466983 TATCGTATGCAGTGATGCCATGTC pLX_317 100% 12.9% 10.1% V5 (many diffs) n/a
40 ccsbBroadEn_15729 pDONR223 0% 11.7% 10.4% None (many diffs) n/a
41 ccsbBroad304_15729 pLX_304 0% 11.7% 10.4% V5 (many diffs) n/a
42 TRCN0000470492 GCCGACTTGCTCCATGATGCAGCT pLX_317 100% 11.7% 10.4% V5 (many diffs) n/a
43 ccsbBroadEn_11384 pDONR223 100% 11.6% 10.4% None (many diffs) n/a
44 ccsbBroad304_11384 pLX_304 0% 11.6% 10.4% V5 (many diffs) n/a
45 TRCN0000470576 TACATACAGACCTACACGTAGACC pLX_317 100% 11.6% 10.4% V5 (many diffs) n/a
46 ccsbBroadEn_13746 pDONR223 100% 10.8% 9.9% None (many diffs) n/a
47 ccsbBroad304_13746 pLX_304 0% 10.8% 9.9% V5 (many diffs) n/a
48 TRCN0000475669 ATTCGCAGCGAGTTTGTCCGCCGC pLX_317 100% 10.8% 9.9% V5 (many diffs) n/a
49 ccsbBroadEn_10227 pDONR223 100% 7.9% 7.3% None (many diffs) n/a
50 ccsbBroad304_10227 pLX_304 0% 7.9% 7.3% V5 (many diffs) n/a
51 TRCN0000469516 ACTCCATTCTCACCCTCTGCATTC pLX_317 100% 7.9% 7.3% V5 (many diffs) n/a
52 ccsbBroadEn_11549 pDONR223 100% 6.9% 5.9% None (many diffs) n/a
53 ccsbBroad304_11549 pLX_304 94.6% 6.9% 5.9% V5 (many diffs) n/a
54 TRCN0000468281 AACATTAGGAAAGAACCCCCACCC pLX_317 100% 6.9% 5.9% V5 (many diffs) n/a
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