Transcript: Human XR_001743500.1

PREDICTED: Homo sapiens CDK5 regulatory subunit associated protein 1 like 1 (CDKAL1), transcript variant X13, misc_RNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
CDKAL1 (54901)
Length:
3105
CDS:
(non-coding)

Additional Resources:

NCBI RefSeq record:
XR_001743500.1
NBCI Gene record:
CDKAL1 (54901)

sgRNA constructs matching this transcript (CRISPRko, NGG PAM)

This list includes CRISPRko constructs with 100% (20mer + NGG) sequence match to the exonic sequence of this non-coding 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 XR_001743500.1, 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 TRCN0000056646 CGAAGGTACGAAGGCGAAATA pLKO.1 274 3UTR 100% 13.200 18.480 N CDKAL1 n/a
2 TRCN0000364306 CCGAAGGTACGAAGGCGAAAT pLKO_005 273 3UTR 100% 10.800 15.120 N CDKAL1 n/a
3 TRCN0000256110 CTAGCTGCTTATGGCTATAAA pLKO_005 426 3UTR 100% 15.000 12.000 N CDKAL1 n/a
4 TRCN0000364304 GATTGGATTTGCCGAAGATTA pLKO_005 745 3UTR 100% 13.200 10.560 N CDKAL1 n/a
5 TRCN0000056645 CGATTGGATTTGCCGAAGATT pLKO.1 744 3UTR 100% 5.625 4.500 N CDKAL1 n/a
6 TRCN0000256111 AGTTGTGGAGGAGACAATTAA pLKO_005 662 3UTR 100% 15.000 10.500 N CDKAL1 n/a
7 TRCN0000256112 ATGCATCCGATGCAGATTTAT pLKO_005 457 3UTR 100% 15.000 10.500 N CDKAL1 n/a
8 TRCN0000364368 ACCATAGCACATCCTTCAAAT pLKO_005 1948 3UTR 100% 13.200 9.240 N CDKAL1 n/a
9 TRCN0000256113 ACTATTGCTACAGATATTATC pLKO_005 1069 3UTR 100% 13.200 9.240 N CDKAL1 n/a
10 TRCN0000364305 AGCCTGTTTATTAACCAATTT pLKO_005 1162 3UTR 100% 13.200 9.240 N CDKAL1 n/a
11 TRCN0000056644 CCTGAACAGTTGCACTGTAAA pLKO.1 482 3UTR 100% 13.200 9.240 N CDKAL1 n/a
12 TRCN0000364369 CTAATGGAAACATCTATAAAG pLKO_005 1748 3UTR 100% 13.200 9.240 N CDKAL1 n/a
13 TRCN0000364303 CTATGAATCAGGCAAACATTT pLKO_005 1437 3UTR 100% 13.200 9.240 N CDKAL1 n/a
14 TRCN0000256114 GACCACTTTAGAAACTCAATT pLKO_005 516 3UTR 100% 13.200 9.240 N CDKAL1 n/a
15 TRCN0000256115 TTATGTTGCACACAATCAATT pLKO_005 1353 3UTR 100% 13.200 9.240 N CDKAL1 n/a
16 TRCN0000265738 ATTTGGCCAGTTATCCAATTG pLKO_005 853 3UTR 100% 10.800 7.560 N CDKAL1 n/a
17 TRCN0000265747 CCATTGGTTATTTGACCTAAA pLKO_005 1913 3UTR 100% 10.800 7.560 N CDKAL1 n/a
18 TRCN0000265766 TTAAGGGACTGAGTATCATTG pLKO_005 613 3UTR 100% 10.800 7.560 N CDKAL1 n/a
19 TRCN0000056647 GACATCTATGAATCAGGCAAA pLKO.1 1432 3UTR 100% 4.050 2.835 N CDKAL1 n/a
20 TRCN0000256116 CCATTCTCCAAGGGCAATAAT pLKO_005 1818 3UTR 100% 15.000 9.000 N CDKAL1 n/a
21 TRCN0000364367 ACTTGTTGAAGAGTACAAATT pLKO_005 1137 3UTR 100% 13.200 7.920 N CDKAL1 n/a
22 TRCN0000194337 CCACCAAGTGACAGCACTATT pLKO.1 327 3UTR 100% 13.200 7.920 N Cdkal1 n/a
23 TRCN0000072628 CCTCCCAAAGTGCTAGGATTA pLKO.1 2384 3UTR 100% 10.800 5.400 Y MRPS16 n/a
24 TRCN0000165027 GAACTCCTGACCTCAAGTGAT pLKO.1 2350 3UTR 100% 4.950 2.475 Y LOC387873 n/a
25 TRCN0000140657 CCTCCCAAAGTGCTAGGATAA pLKO.1 2384 3UTR 100% 10.800 5.400 Y CD3EAP n/a
26 TRCN0000155836 CCCAAAGTGCTGGGATTACAA pLKO.1 2965 3UTR 100% 5.625 2.813 Y KLHL30 n/a
27 TRCN0000141025 CCCAAAGTGCTGGGATTACTT pLKO.1 2965 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 XR_001743500.1, 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_03477 pDONR223 100% 47.9% None 1_167del;907_908ins167;1738_3105del n/a
2 ccsbBroad304_03477 pLX_304 0% 47.9% V5 1_167del;907_908ins167;1738_3105del n/a
3 TRCN0000475115 ACTTGGTCCAGACCCATGATCACA pLX_317 30.9% 47.9% V5 1_167del;907_908ins167;1738_3105del n/a
4 ccsbBroadEn_14174 pDONR223 100% 9.1% None (many diffs) n/a
5 ccsbBroad304_14174 pLX_304 0% 9.1% V5 (not translated due to prior stop codon) (many diffs) n/a
6 TRCN0000468296 GAAAAGTAAGGACTTAGACTTGGT pLX_317 100% 9.1% V5 (not translated due to prior stop codon) (many diffs) n/a
7 ccsbBroadEn_13787 pDONR223 100% 5.6% None (many diffs) n/a
8 ccsbBroad304_13787 pLX_304 0% 5.6% V5 (many diffs) n/a
9 TRCN0000472732 ATTTTAATGCCCTACTTTCGGATA pLX_317 100% 5.6% V5 (many diffs) n/a
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