Transcript: Human NM_001369806.1

Homo sapiens homeodomain interacting protein kinase 1 (HIPK1), transcript variant 5, mRNA.

Source:
NCBI, updated 2019-07-07
Taxon:
Homo sapiens (human)
Gene:
HIPK1 (204851)
Length:
8088
CDS:
99..3731

Additional Resources:

NCBI RefSeq record:
NM_001369806.1
NBCI Gene record:
HIPK1 (204851)

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.

Clone ID Target Seq Vector PAM Seq Cut Position Cut % of CDS Length Exon On Target Score[?] Other Matching Genes Orig. Target Gene[?] Notes Addgene[?]
1 BRDN0001144888 GAGGGGAATTACCAGTACAG pXPR_003 CGG 2233 61% 10 1.0771 HIPK1 HIPK1 76995
2 BRDN0001147431 AGACCTTAAGCCTCCACAGT pXPR_003 GGG 1307 36% 4 0.8281 HIPK1 HIPK1 76994
3 BRDN0001147143 TCGCCAGCCCTACCGAGTGA pXPR_003 AGG 997 27% 2 0.8257 HIPK1 HIPK1 76993
4 BRDN0001148212 AGCACTGCCCGAGCTATCAG pXPR_003 CGG 268 7% 2 0.6724 HIPK1 HIPK1 76992
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shRNA constructs matching this transcript with 100% SDR[?] match

This list includes all shRNAs that have a perfect SDR[?] match to Human NM_001369806.1, 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 TRCN0000379657 GACAGAGTAGCAACGACAAAT pLKO_005 202 CDS 100% 13.200 18.480 N HIPK1 n/a
2 TRCN0000007161 CCAAGGAAATTGTGGCTATTA pLKO.1 733 CDS 100% 13.200 9.240 N HIPK1 n/a
3 TRCN0000380397 TACTCTTTCTCTGGCTAATTC pLKO_005 1892 CDS 100% 13.200 9.240 N HIPK1 n/a
4 TRCN0000199975 CAGCCCTTATTCCACTGATAC pLKO.1 2948 CDS 100% 10.800 7.560 N HIPK1 n/a
5 TRCN0000195152 CCAACAGACATTTATAGTATG pLKO.1 2042 CDS 100% 10.800 7.560 N HIPK1 n/a
6 TRCN0000007165 GCAATCATGTTAAGTCTTGTT pLKO.1 1684 CDS 100% 4.950 3.465 N HIPK1 n/a
7 TRCN0000199788 GCAGTCATCTGGATGCTGTAT pLKO.1 3155 CDS 100% 4.950 3.465 N HIPK1 n/a
8 TRCN0000007162 CCAGTGTTCTAGCTTCCAGTT pLKO.1 1855 CDS 100% 4.050 2.835 N HIPK1 n/a
9 TRCN0000007164 CCTGAAATTATTCTTGGGTTA pLKO.1 1179 CDS 100% 4.050 2.835 N HIPK1 n/a
10 TRCN0000007163 GCCCATGTTGTCAGACAACAA pLKO.1 2586 CDS 100% 0.495 0.347 N HIPK1 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_001369806.1, 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_15287 pDONR223 0% 67.2% 66.9% None (many diffs) n/a
2 ccsbBroad304_15287 pLX_304 0% 67.2% 66.9% V5 (many diffs) n/a
3 TRCN0000472928 TGTTTACCAACACTAACACTGTCG pLX_317 15.9% 67.2% 66.9% V5 (many diffs) n/a
4 ccsbBroadEn_15286 pDONR223 62.5% 66.9% 66.6% None (many diffs) n/a
5 ccsbBroad304_15286 pLX_304 0% 66.9% 66.6% V5 (many diffs) n/a
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