Transcript: Human NM_004571.5

Homo sapiens PBX/knotted 1 homeobox 1 (PKNOX1), transcript variant 1, mRNA.

Source:
NCBI, updated 2019-06-30
Taxon:
Homo sapiens (human)
Gene:
PKNOX1 (5316)
Length:
5300
CDS:
160..1470

Additional Resources:

NCBI RefSeq record:
NM_004571.5
NBCI Gene record:
PKNOX1 (5316)

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_004571.5, 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 TRCN0000020524 CCGTACATACTCCAGTCTAAT pLKO.1 2440 3UTR 100% 13.200 18.480 N PKNOX1 n/a
2 TRCN0000020528 CCATTTATAGGCATCCACTAT pLKO.1 329 CDS 100% 4.950 3.960 N PKNOX1 n/a
3 TRCN0000070699 GCCATTTATAGGCATCCACTA pLKO.1 328 CDS 100% 4.050 3.240 N Pknox1 n/a
4 TRCN0000229668 AGATCCAGAAACTGATAATTT pLKO_005 489 CDS 100% 15.000 10.500 N PKNOX1 n/a
5 TRCN0000229670 GAATTGGATGATGACTATATT pLKO_005 2093 3UTR 100% 15.000 10.500 N PKNOX1 n/a
6 TRCN0000218148 GATTGCTGCTCAGACAAATTT pLKO_005 1041 CDS 100% 15.000 10.500 N PKNOX1 n/a
7 TRCN0000020526 GCAAGTAGTAACAGAGTTAAA pLKO.1 213 CDS 100% 13.200 9.240 N PKNOX1 n/a
8 TRCN0000229669 TAACGAACTCTGCAAAGATTT pLKO_005 564 CDS 100% 13.200 9.240 N PKNOX1 n/a
9 TRCN0000229667 TTTATAGGCATCCACTATTTC pLKO_005 332 CDS 100% 13.200 9.240 N PKNOX1 n/a
10 TRCN0000020527 CCAAGTGGTCACACAGACATT pLKO.1 825 CDS 100% 4.950 3.465 N PKNOX1 n/a
11 TRCN0000020525 GCTCAGACAAATTTGACACTA pLKO.1 1048 CDS 100% 4.950 3.465 N PKNOX1 n/a
12 TRCN0000155836 CCCAAAGTGCTGGGATTACAA pLKO.1 3486 3UTR 100% 5.625 2.813 Y KLHL30 n/a
13 TRCN0000141025 CCCAAAGTGCTGGGATTACTT pLKO.1 3486 3UTR 100% 5.625 2.813 Y EID2B 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_004571.5, 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_06732 pDONR223 100% 99.9% 100% None 342T>C n/a
2 ccsbBroad304_06732 pLX_304 0% 99.9% 100% V5 342T>C n/a
3 TRCN0000480720 ATTCTGAGATCGGGAAGACTGACA pLX_317 30.7% 99.9% 100% V5 342T>C n/a
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