Transcript: Human NM_004385.5

Homo sapiens versican (VCAN), transcript variant 1, mRNA.

Source:
NCBI, updated 2019-09-27
Taxon:
Homo sapiens (human)
Gene:
VCAN (1462)
Length:
12345
CDS:
287..10477

Additional Resources:

NCBI RefSeq record:
NM_004385.5
NBCI Gene record:
VCAN (1462)

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_004385.5, 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 TRCN0000323355 ACTCGCCTTGAAGCGACTATT pLKO_005 3314 CDS 100% 13.200 18.480 N VCAN n/a
2 TRCN0000323298 ACTGATACACTCATTACTTTA pLKO_005 5279 CDS 100% 13.200 18.480 N VCAN n/a
3 TRCN0000033634 CCGATATTGATAGAGAGTATT pLKO.1 4104 CDS 100% 13.200 18.480 N VCAN n/a
4 TRCN0000344029 TTTGAGTATCCTCGCAGAAAC pLKO_005 1351 CDS 100% 10.800 15.120 N VCAN n/a
5 TRCN0000033638 CCGCATCAAATGGTCTAAGAT pLKO.1 472 CDS 100% 5.625 7.875 N VCAN n/a
6 TRCN0000323274 ACAATGAGTTTGGGCATATTT pLKO_005 10866 3UTR 100% 15.000 10.500 N VCAN n/a
7 TRCN0000350815 GATTTAGGCTCAGGATTATTT pLKO_005 3821 CDS 100% 15.000 10.500 N VCAN n/a
8 TRCN0000344092 GGGAATTTCCACAGTTATTTA pLKO_005 2284 CDS 100% 15.000 10.500 N VCAN n/a
9 TRCN0000323353 ATGGATGTGTTCAACCTTAAT pLKO_005 313 CDS 100% 13.200 9.240 N VCAN n/a
10 TRCN0000344093 GTGAATTTCTCCGCATCAAAT pLKO_005 462 CDS 100% 13.200 9.240 N VCAN n/a
11 TRCN0000033637 GCACCTGTTATCCTACTGAAA pLKO.1 9591 CDS 100% 4.950 3.465 N VCAN n/a
12 TRCN0000033635 GCCAACTACATCAACTGGTAT pLKO.1 2938 CDS 100% 4.950 3.465 N VCAN n/a
13 TRCN0000033636 GCCACAGTTATTCCAGAGATT pLKO.1 8384 CDS 100% 4.950 3.465 N VCAN n/a
14 TRCN0000344091 CAATGAGTTTGGGCATATTTA pLKO_005 10867 3UTR 100% 15.000 9.000 N VCAN n/a
Download CSV

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_004385.5, 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.

Download CSV

All ORF constructs matching this transcript

Clone ID DNA Barcode Vector Sequenced %[?] Nuc. Match %[?] Prot. Match %[?] Epitope Tag Match Diffs[?] Addgene[?]
1 ccsbBroadEn_10755 pDONR223 100% 10.4% 10.2% None (many diffs) n/a
2 ccsbBroad304_10755 pLX_304 0% 10.4% 10.2% V5 (many diffs) n/a
3 TRCN0000473729 AATCACGCGGTTTTTAGATCGTTA pLX_317 42.2% 10.4% 10.2% V5 (many diffs) n/a
Download CSV