Transcript: Human NM_001353878.2

Homo sapiens transmembrane 6 superfamily member 1 (TM6SF1), transcript variant 4, mRNA.

Source:
NCBI, updated 2019-06-01
Taxon:
Homo sapiens (human)
Gene:
TM6SF1 (53346)
Length:
2009
CDS:
37..1119

Additional Resources:

NCBI RefSeq record:
NM_001353878.2
NBCI Gene record:
TM6SF1 (53346)

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_001353878.2, 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 TRCN0000423689 GAAGTATGGAACACGAATTTG pLKO_005 519 CDS 100% 13.200 18.480 N TM6SF1 n/a
2 TRCN0000138288 CCGTATCTGAACACCGCATAT pLKO.1 337 CDS 100% 10.800 15.120 N TM6SF1 n/a
3 TRCN0000134976 CTGCCGATTATATACGCAATT pLKO.1 771 CDS 100% 10.800 15.120 N TM6SF1 n/a
4 TRCN0000421121 CACTGTATGTGTGAGCTATAT pLKO_005 1397 3UTR 100% 13.200 9.240 N TM6SF1 n/a
5 TRCN0000133980 CCATTTCACTCTCTTCTCATA pLKO.1 1341 3UTR 100% 4.950 3.465 N TM6SF1 n/a
6 TRCN0000134931 CCCTCAAAGGTTATTCAAGAA pLKO.1 631 CDS 100% 4.950 3.465 N TM6SF1 n/a
7 TRCN0000135885 GCTCTGCTCATTATCTGATGT pLKO.1 383 CDS 100% 4.950 3.465 N TM6SF1 n/a
8 TRCN0000137625 GCTTAGTGGTTCCTGGATGTT pLKO.1 890 CDS 100% 4.950 3.465 N TM6SF1 n/a
9 TRCN0000135809 CCACTGTTCTATGTGTATGCA pLKO.1 220 CDS 100% 3.000 2.100 N TM6SF1 n/a
10 TRCN0000137796 GAACACGAATTTGCCCTGCTT pLKO.1 527 CDS 100% 2.640 1.848 N TM6SF1 n/a
11 TRCN0000007228 CACCTGTAATCCCAGCACTTT pLKO.1 1050 CDS 100% 4.950 2.475 Y CFLAR n/a
12 TRCN0000166635 CACCTGTAATCCCAGCACTTT pLKO.1 1050 CDS 100% 4.950 2.475 Y C19orf31 n/a
13 TRCN0000021429 CACACCTGTAATCCCAGCATT pLKO.1 1048 CDS 100% 4.950 2.475 Y ERN2 n/a
14 TRCN0000138998 CACACCTGTAATCCCAGCATT pLKO.1 1048 CDS 100% 4.950 2.475 Y P3H4 n/a
15 TRCN0000344020 CACACCTGTAATCCCAGCATT pLKO_005 1048 CDS 100% 4.950 2.475 Y P3H4 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_001353878.2, 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_12020 pDONR223 100% 52.2% 46.2% None 480_799del;885_1080del n/a
2 ccsbBroad304_12020 pLX_304 0% 52.2% 46.2% V5 480_799del;885_1080del n/a
3 TRCN0000480894 TTGCCTACGGTTGCTGGAAAACCC pLX_317 62.5% 52.2% 46.2% V5 480_799del;885_1080del n/a
4 ccsbBroadEn_14157 pDONR223 100% 39.4% 2.5% None (many diffs) n/a
5 ccsbBroad304_14157 pLX_304 0% 39.4% 2.5% V5 (not translated due to prior stop codon) (many diffs) n/a
6 TRCN0000472759 ACGGCCTATTAGACCTGAAACGTC pLX_317 100% 39.4% 2.5% V5 (not translated due to prior stop codon) (many diffs) n/a
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