Transcript: Human NM_001105522.1

Homo sapiens tripartite motif containing 49D2 (TRIM49D2), mRNA.

Source:
NCBI, updated 2019-07-02
Taxon:
Homo sapiens (human)
Gene:
TRIM49D2 (729384)
Length:
1651
CDS:
115..1473

Additional Resources:

NCBI RefSeq record:
NM_001105522.1
NBCI Gene record:
TRIM49D2 (729384)

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_001105522.1, 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 TRCN0000218477 ACCAATTCCGAGTGGATATTA pLKO_005 962 CDS 100% 15.000 7.500 Y TRIM49D2 n/a
2 TRCN0000218171 ACTTTCACCTCTGGCAAATAT pLKO_005 1117 CDS 100% 15.000 7.500 Y TRIM49D2 n/a
3 TRCN0000337330 AGGGAGACAAAGAAGATATTC pLKO_005 403 CDS 100% 13.200 6.600 Y TRIM53BP n/a
4 TRCN0000218543 CGAATCAGAATGGCAATATAC pLKO_005 1208 CDS 100% 13.200 6.600 Y TRIM49D2 n/a
5 TRCN0000337332 TCAGCCACTGGAAGGATTATG pLKO_005 608 CDS 100% 13.200 6.600 Y TRIM53BP n/a
6 TRCN0000337333 ACTGGCAAGACATCCCAATTC pLKO_005 239 CDS 100% 10.800 5.400 Y TRIM53AP n/a
7 TRCN0000244286 ATCAGAAGATGCCTGCATTTC pLKO_005 662 CDS 100% 10.800 5.400 Y TRIM51BP n/a
8 TRCN0000230879 CCAGAGACAAATCAGATATGT pLKO_005 1474 CDS 100% 5.625 2.813 Y TRIM49D2 n/a
9 TRCN0000033919 CCCAATTCTTACTCAGTGCTT pLKO.1 252 CDS 100% 2.640 1.320 Y TRIM48 n/a
10 TRCN0000230878 TACCAACCATGTAGGATTATT pLKO_005 1329 CDS 100% 0.000 0.000 Y TRIM49D2 n/a
11 TRCN0000337398 CTGGAAGGATTATGTGAATTT pLKO_005 615 CDS 100% 13.200 6.600 Y TRIM53AP n/a
12 TRCN0000033920 GAGGAGCAAATGTGTGGCATT pLKO.1 379 CDS 100% 4.050 2.025 Y TRIM48 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_001105522.1, 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_15934 pDONR223 0% 91.7% 84.7% None (many diffs) n/a
2 ccsbBroad304_15934 pLX_304 0% 91.7% 84.7% V5 (many diffs) n/a
3 TRCN0000476541 TCCAAACTTGTCGCGCACACCGTT pLX_317 25.8% 91.7% 84.7% V5 (many diffs) n/a
4 ccsbBroadEn_03779 pDONR223 100% 91.6% 84.5% None (many diffs) n/a
5 ccsbBroad304_03779 pLX_304 0% 91.6% 84.5% V5 (many diffs) n/a
6 TRCN0000479767 CGAAGACGCCTACTTGGGTCTACC pLX_317 25.8% 91.6% 84.5% V5 (many diffs) n/a
7 ccsbBroadEn_12545 pDONR223 100% 45% 43.5% None (many diffs) n/a
8 ccsbBroad304_12545 pLX_304 0% 45% 43.5% V5 (many diffs) n/a
9 TRCN0000474512 GGGAGGGCCCAAAGGTCCATTTTA pLX_317 79.8% 45% 43.5% V5 (many diffs) n/a
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