Transcript: Mouse NM_054070.3

Mus musculus AFG3-like AAA ATPase 1 (Afg3l1), transcript variant 1, mRNA.

Source:
NCBI, updated 2017-05-27
Taxon:
Mus musculus (mouse)
Gene:
Afg3l1 (114896)
Length:
4288
CDS:
49..2418

Additional Resources:

NCBI RefSeq record:
NM_054070.3
NBCI Gene record:
Afg3l1 (114896)

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 Mouse NM_054070.3, 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 Mouse Gene?[?] Orig. Target Gene[?] Addgene[?]
1 TRCN0000031212 TCCACTAATGTGGTAGTGTTA pLKO.1 1354 CDS 100% 0.495 0.693 N Afg3l1 n/a
2 TRCN0000031213 GAAACACTTCGTGCAGTATTA pLKO.1 549 CDS 100% 13.200 10.560 N Afg3l1 n/a
3 TRCN0000326059 GAAACACTTCGTGCAGTATTA pLKO_005 549 CDS 100% 13.200 10.560 N Afg3l1 n/a
4 TRCN0000031209 GCTTCACTGGTGCTGATATTT pLKO.1 1568 CDS 100% 15.000 10.500 N Afg3l1 n/a
5 TRCN0000325986 GCTTCACTGGTGCTGATATTT pLKO_005 1568 CDS 100% 15.000 10.500 N Afg3l1 n/a
6 TRCN0000031210 CCTGGTTAGCATCCTCCTATA pLKO.1 813 CDS 100% 10.800 7.560 N Afg3l1 n/a
7 TRCN0000325984 CCTGGTTAGCATCCTCCTATA pLKO_005 813 CDS 100% 10.800 7.560 N Afg3l1 n/a
8 TRCN0000031211 GCAGCTGTTCTTTGGTCAGAT pLKO.1 1929 CDS 100% 4.950 3.465 N Afg3l1 n/a
9 TRCN0000354080 GCAGCTGTTCTTTGGTCAGAT pLKO_005 1929 CDS 100% 4.950 3.465 N Afg3l1 n/a
10 TRCN0000114051 GCCTGGTTTACAGAGTGAGTT pLKO.1 2962 3UTR 100% 4.950 2.475 Y H2-T3 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_054070.3, 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_10220 pDONR223 100% 13.3% 9.8% None (many diffs) n/a
2 ccsbBroad304_10220 pLX_304 0% 13.3% 9.8% V5 (many diffs) n/a
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