Transcript: Human XM_005254498.4

PREDICTED: Homo sapiens creatine kinase, mitochondrial 1A (CKMT1A), transcript variant X3, mRNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
CKMT1A (548596)
Length:
1497
CDS:
588..1364

Additional Resources:

NCBI RefSeq record:
XM_005254498.4
NBCI Gene record:
CKMT1A (548596)

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_005254498.4, 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 TRCN0000220076 ACCTGGCTGGACGTTACTATA pLKO.1 712 CDS 100% 13.200 6.600 Y CKMT1A n/a
2 TRCN0000243701 ACGGATCTAGATGCCAGTAAA pLKO_005 578 5UTR 100% 13.200 6.600 Y CKMT1A n/a
3 TRCN0000243702 AGGCGGTGTCTTTGATATTTC pLKO_005 1199 CDS 100% 13.200 6.600 Y CKMT1A n/a
4 TRCN0000243704 CATCGATGGAGTAAACTATTT pLKO_005 1268 CDS 100% 13.200 6.600 Y CKMT1A n/a
5 TRCN0000180608 GCTGAACAGCAGCAGCTTATT pLKO.1 753 CDS 100% 13.200 6.600 Y CKMT1A n/a
6 TRCN0000220656 GCTGAACAGCAGCAGCTTATT pLKO.1 753 CDS 100% 13.200 6.600 Y CKMT1B n/a
7 TRCN0000220077 GGCCAGATGCTCGTGGAATTT pLKO.1 841 CDS 100% 13.200 6.600 Y CKMT1A n/a
8 TRCN0000196397 GACCACTTTCTGTTTGATAAG pLKO.1 777 CDS 100% 10.800 5.400 Y CKMT2 n/a
9 TRCN0000243700 GGTGAATGAGGAGGATCATAC pLKO_005 893 CDS 100% 10.800 5.400 Y CKMT1A n/a
10 TRCN0000243703 TGAGGAGACCTATGAGGTATT pLKO_005 487 5UTR 100% 10.800 5.400 Y CKMT1A n/a
11 TRCN0000220655 CGGTGTCTTTGATATTTCTAA pLKO.1 1202 CDS 100% 5.625 2.813 Y CKMT1B n/a
12 TRCN0000220654 CGTGGAATTTGGCACAACAAT pLKO.1 852 CDS 100% 5.625 2.813 Y CKMT1B n/a
13 TRCN0000196923 GAGCGACACAATGGATATGAC pLKO.1 536 5UTR 100% 4.950 2.475 Y CKMT1B n/a
14 TRCN0000197251 GAGCGTTTGGGATACATCTTG pLKO.1 1032 CDS 100% 4.950 2.475 Y CKMT1B n/a
15 TRCN0000220657 GTGATCCAAGAGCGACACAAT pLKO.1 527 5UTR 100% 4.950 2.475 Y CKMT1B n/a
16 TRCN0000195676 CGAAAGCACAACAACTGCATG pLKO.1 323 5UTR 100% 4.050 2.025 Y CKMT1B n/a
17 TRCN0000179459 GCAGCTTATTGATGACCACTT pLKO.1 764 CDS 100% 4.050 2.025 Y CKMT1A n/a
18 TRCN0000024926 CCGAAAGCACAACAACTGCAT pLKO.1 322 5UTR 100% 2.640 1.320 Y Ckmt1 n/a
19 TRCN0000181051 CCGAAAGCACAACAACTGCAT pLKO.1 322 5UTR 100% 2.640 1.320 Y CKMT1A n/a
20 TRCN0000197252 GATTGATTGTGAACGGCGTCT pLKO.1 1289 CDS 100% 2.160 1.080 Y CKMT1B n/a
21 TRCN0000220658 GCTAAGCAAAGATAGCCGCTT pLKO.1 1112 CDS 100% 2.160 1.080 Y CKMT1B 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_005254498.4, 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_05701 pDONR223 100% 61.8% 60.9% None 0_1ins433;11_12ins44 n/a
2 ccsbBroad304_05701 pLX_304 0% 61.8% 60.9% V5 0_1ins433;11_12ins44 n/a
3 TRCN0000471987 CACAGATGCACTAACCCGGCGGCA pLX_317 30.9% 61.8% 60.9% V5 0_1ins433;11_12ins44 n/a
4 ccsbBroadEn_15331 pDONR223 0% 61.8% 60.9% None 0_1ins433;11_12ins44 n/a
5 ccsbBroad304_15331 pLX_304 0% 61.8% 60.9% V5 0_1ins433;11_12ins44 n/a
6 TRCN0000475004 CCAGTAAAACGGTGTAACTTCAAA pLX_317 37.8% 61.8% 60.9% V5 0_1ins433;11_12ins44 n/a
7 TRCN0000488041 AATCCCTCTTGATCACATCACAAC pLX_317 26.3% 61.8% 60.9% V5 (not translated due to prior stop codon) 0_1ins433;11_12ins44 n/a
8 ccsbBroadEn_00314 pDONR223 100% 61.7% 60.9% None (many diffs) n/a
9 ccsbBroad304_00314 pLX_304 0% 61.7% 60.9% V5 (many diffs) n/a
10 TRCN0000473448 TAGCCCCGACCAGACGGTTAACAC pLX_317 38.2% 61.7% 60.9% V5 (many diffs) n/a
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