Transcript: Human XM_024449189.1

PREDICTED: Homo sapiens chromosome 12 open reading frame 49 (C12orf49), transcript variant X1, mRNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
C12orf49 (79794)
Length:
5182
CDS:
72..692

Additional Resources:

NCBI RefSeq record:
XM_024449189.1
NBCI Gene record:
C12orf49 (79794)

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_024449189.1, 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 TRCN0000364466 GCAGTTTAACTTGGGCAATAG pLKO_005 257 CDS 100% 10.800 15.120 N C12orf49 n/a
2 TRCN0000377203 GGATGAACTCGGCTACGTTTG pLKO_005 332 CDS 100% 6.000 8.400 N C12orf49 n/a
3 TRCN0000005086 GCCATTCTAGTTGAATATGTT pLKO.1 1135 3UTR 100% 5.625 7.875 N C12orf49 n/a
4 TRCN0000005089 GCTGTAATGTCAACGTCCCTA pLKO.1 382 CDS 100% 2.640 3.696 N C12orf49 n/a
5 TRCN0000005087 CCCATAGCAAAGTATTGCTAT pLKO.1 639 CDS 100% 0.495 0.693 N C12orf49 n/a
6 TRCN0000364465 CTGGTAAATGGCTGCTGTAAT pLKO_005 369 CDS 100% 13.200 9.240 N C12orf49 n/a
7 TRCN0000364467 TCCAGGTTCATGACCATAATC pLKO_005 217 CDS 100% 13.200 9.240 N C12orf49 n/a
8 TRCN0000005090 GAGGAAGGATTTGCTGGTAAA pLKO.1 356 CDS 100% 10.800 7.560 N C12orf49 n/a
9 TRCN0000377205 TTGAGTTGTGCCTGGCCAAAT pLKO_005 571 CDS 100% 10.800 7.560 N C12orf49 n/a
10 TRCN0000368946 ATCAGTGCCGCAACTCCATTC pLKO_005 292 CDS 100% 6.000 4.200 N C12orf49 n/a
11 TRCN0000005088 GTGCAGTTTAACTTGGGCAAT pLKO.1 255 CDS 100% 4.050 2.835 N C12orf49 n/a
12 TRCN0000164978 GTGGTGGCTTATGCCTGTAAT pLKO.1 3277 3UTR 100% 13.200 6.600 Y C9orf139 n/a
13 TRCN0000078113 GCCTGTAATCCCAGCACTTTA pLKO.1 3289 3UTR 100% 13.200 6.600 Y LIAS n/a
14 TRCN0000148469 CTGGGTTCAAGCAATTCTCTT pLKO.1 3781 3UTR 100% 4.950 2.475 Y C16orf89 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_024449189.1, 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_04127 pDONR223 100% 80.7% 71.9% None 1_67del;112_113ins64 n/a
2 ccsbBroad304_04127 pLX_304 0% 80.7% 71.9% V5 1_67del;112_113ins64 n/a
3 TRCN0000473525 TGCCTCACACACTTATAGATCAGG pLX_317 76.2% 80.7% 71.9% V5 1_67del;112_113ins64 n/a
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