Transcript: Mouse XM_006507280.3

PREDICTED: Mus musculus cholecystokinin B receptor (Cckbr), transcript variant X1, mRNA.

Source:
NCBI, updated 2016-06-22
Taxon:
Mus musculus (mouse)
Gene:
Cckbr (12426)
Length:
2742
CDS:
467..1825

Additional Resources:

NCBI RefSeq record:
XM_006507280.3
NBCI Gene record:
Cckbr (12426)

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 Mouse XM_006507280.3, 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 Mouse Gene?[?] Orig. Target Gene[?] Addgene[?]
1 TRCN0000221819 CCAGTGAACGTGTCCAACAAA pLKO.1 1095 CDS 100% 5.625 7.875 N Cckbr n/a
2 TRCN0000271772 CTCACCAGACCACATCATAAA pLKO_005 2384 3UTR 100% 13.200 9.240 N Cckbr n/a
3 TRCN0000221821 CTCCGCTTTGATGGTGATAAT pLKO.1 1208 CDS 100% 13.200 9.240 N Cckbr n/a
4 TRCN0000328362 TCCGCTTTGATGGTGATAATG pLKO_005 1209 CDS 100% 13.200 9.240 N Cckbr n/a
5 TRCN0000271748 CTCTGTCCAGGCTAAGCTATA pLKO_005 1776 CDS 100% 10.800 7.560 N Cckbr n/a
6 TRCN0000328476 GACCATTCGAATCACCCTTTA pLKO_005 628 CDS 100% 10.800 7.560 N Cckbr n/a
7 TRCN0000221818 CCCATTACATAGACAGACATA pLKO.1 2060 3UTR 100% 4.950 3.465 N Cckbr n/a
8 TRCN0000221820 CCCTATCTCTTTCATCCACTT pLKO.1 1591 CDS 100% 4.050 2.835 N Cckbr n/a
9 TRCN0000221822 GCGGTGATCTTTCTGATGAGT pLKO.1 650 CDS 100% 3.000 2.100 N Cckbr n/a
10 TRCN0000166364 CACACACACACACACACACAA pLKO.1 77 5UTR 100% 4.950 2.475 Y KAAG1 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 XM_006507280.3, 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_05945 pDONR223 100% 83.8% 87.4% None (many diffs) n/a
2 ccsbBroad304_05945 pLX_304 0% 83.8% 87.4% V5 (many diffs) n/a
3 TRCN0000467911 ACTGGCAAGCTCCACCCTGCATCA pLX_317 21.8% 83.8% 87.4% V5 (many diffs) n/a
4 TRCN0000489736 CATATCTTAGGAAGGAATTCTCAA pLX_317 30.3% 83.8% 87.4% V5 (not translated due to prior stop codon) (many diffs) n/a
5 TRCN0000489791 GGGGCTCAAACATGTTCATGTGAC pLX_317 28.8% 83.7% 87.2% V5 (many diffs) n/a
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