Transcript: Mouse NM_001083316.2

Mus musculus platelet derived growth factor receptor, alpha polypeptide (Pdgfra), transcript variant 1, mRNA.

Source:
NCBI, updated 2017-06-10
Taxon:
Mus musculus (mouse)
Gene:
Pdgfra (18595)
Length:
6602
CDS:
197..3466

Additional Resources:

NCBI RefSeq record:
NM_001083316.2
NBCI Gene record:
Pdgfra (18595)

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 NM_001083316.2, 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 Mouse Gene?[?] Orig. Target Gene[?] Addgene[?]
1 TRCN0000321928 GATGATCTGCAAGCATATTAA pLKO_005 1537 CDS 100% 15.000 21.000 N Pdgfra n/a
2 TRCN0000055007 GCCAGCAATGTCTCAAATATT pLKO.1 1592 CDS 100% 15.000 21.000 N Pdgfra n/a
3 TRCN0000322002 CGTTCAAGACCAGCGAGTTTA pLKO_005 786 CDS 100% 13.200 10.560 N Pdgfra n/a
4 TRCN0000055006 CGATTCCAACTACGTGTCAAA pLKO.1 2731 CDS 100% 4.950 3.960 N Pdgfra n/a
5 TRCN0000055003 GCCAGCTCTTATTACCCTCTA pLKO.1 264 CDS 100% 4.050 3.240 N Pdgfra n/a
6 TRCN0000321999 AGTGGCCATTACACCATTATA pLKO_005 1361 CDS 100% 15.000 10.500 N Pdgfra n/a
7 TRCN0000321927 GGATACTTGGATTGAACTTTA pLKO_005 3625 3UTR 100% 13.200 9.240 N Pdgfra n/a
8 TRCN0000350662 TCATCGTCCTGGTGGTCATTT pLKO_005 1821 CDS 100% 13.200 9.240 N Pdgfra n/a
9 TRCN0000055005 CCTGGAGAAGTGAGAAACAAA pLKO.1 944 CDS 100% 5.625 3.938 N Pdgfra n/a
10 TRCN0000055004 GCCACATTTGAACATTGTGAA pLKO.1 2152 CDS 100% 4.950 2.970 N Pdgfra 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_001083316.2, 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_14734 pDONR223 0% 86.4% 91.8% None (many diffs) n/a
2 ccsbBroad304_14734 pLX_304 0% 86.4% 91.8% V5 (many diffs) n/a
3 TRCN0000472927 CCCTCGTGGCCGGGGGTTCCCTGT pLX_317 13.3% 86.4% 91.8% V5 (many diffs) n/a
4 TRCN0000491475 TCTACTAACGTTGCATTAGTGGAT pLX_317 10.3% 86.4% 91.8% V5 (not translated due to prior stop codon) (many diffs) n/a
5 TRCN0000489486 AGACCGCATTTGGTGACAGGGCCA pLX_317 20.7% 42.8% .6% V5 (not translated due to prior stop codon) (many diffs) n/a
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