Transcript: Human NM_001010889.2

Homo sapiens PRAME family member 6 (PRAMEF6), mRNA.

Source:
NCBI, updated 2019-06-30
Taxon:
Homo sapiens (human)
Gene:
PRAMEF6 (440561)
Length:
1720
CDS:
87..1517

Additional Resources:

NCBI RefSeq record:
NM_001010889.2
NBCI Gene record:
PRAMEF6 (440561)

shRNA constructs matching this transcript with 100% SDR[?] match

This list includes all shRNAs that have a perfect SDR[?] match to Human NM_001010889.2, 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 Human Gene?[?] Orig. Target Gene[?] Addgene[?]
1 TRCN0000246041 CCCGAGTATCAGTCAACTAAA pLKO_005 1037 CDS 100% 13.200 6.600 Y PRAMEF9 n/a
2 TRCN0000337185 CCCTTGAGTACCTGGATTTAG pLKO_005 1138 CDS 100% 13.200 6.600 Y PRAMEF11 n/a
3 TRCN0000246089 CTGTCTGAAGACCTCGTTAAA pLKO_005 956 CDS 100% 13.200 6.600 Y PRAMEF5 n/a
4 TRCN0000253801 GAACAGGACTCTGGATGAATA pLKO_005 554 CDS 100% 13.200 6.600 Y PRAMEF20 n/a
5 TRCN0000254726 GGAATGCCCTTCCGCAATATC pLKO_005 651 CDS 100% 13.200 6.600 Y PRAMEF6 n/a
6 TRCN0000246040 GGAGCACAGAACCCATCATTT pLKO_005 1603 3UTR 100% 13.200 6.600 Y PRAMEF9 n/a
7 TRCN0000337186 GGCATCAGACTGACCAATTAC pLKO_005 1074 CDS 100% 13.200 6.600 Y PRAMEF11 n/a
8 TRCN0000246043 GGGAATGCCCTTCCGCAATAT pLKO_005 650 CDS 100% 13.200 6.600 Y PRAMEF9 n/a
9 TRCN0000337117 TCGTTAAAGGTCCTCACAATA pLKO_005 969 CDS 100% 13.200 6.600 Y PRAMEF11 n/a
10 TRCN0000262399 TCTGGACACTTGGAAACTAAA pLKO_005 1556 3UTR 100% 13.200 6.600 Y PRAMEF15 n/a
11 TRCN0000254724 TGGCATCAGACTGACCAATTA pLKO_005 1073 CDS 100% 13.200 6.600 Y PRAMEF6 n/a
12 TRCN0000254725 TGTCTGAAGACCTCGTTAAAG pLKO_005 957 CDS 100% 13.200 6.600 Y PRAMEF6 n/a
13 TRCN0000246091 TGTTGAATGCCTGCCTATTTG pLKO_005 1512 CDS 100% 13.200 6.600 Y PRAMEF5 n/a
14 TRCN0000246088 AGGTCTTAGGTACATCCTATA pLKO_005 1581 3UTR 100% 10.800 5.400 Y PRAMEF5 n/a
15 TRCN0000265599 ATTTGGGTGGATATGTCAAAC pLKO_005 1528 3UTR 100% 10.800 5.400 Y PRAMEF6 n/a
16 TRCN0000265615 CCGAGTATCAGTCAACTAAAG pLKO_005 1038 CDS 100% 10.800 5.400 Y PRAMEF6 n/a
17 TRCN0000262401 GCTGTCTGAAGACCTCGTTAA pLKO_005 955 CDS 100% 10.800 5.400 Y PRAMEF15 n/a
18 TRCN0000246090 TGACCTGGAGGCAGATCAATG pLKO_005 1487 CDS 100% 10.800 5.400 Y PRAMEF5 n/a
19 TRCN0000246092 TGCTGAGCCACACAATCATAC pLKO_005 1279 CDS 100% 10.800 5.400 Y PRAMEF5 n/a
20 TRCN0000262400 TGGGAATGCCCTTCCGCAATA pLKO_005 649 CDS 100% 10.800 5.400 Y PRAMEF15 n/a
21 TRCN0000167074 CGAGTATCAGTCAACTAAAGA pLKO.1 1039 CDS 100% 5.625 2.813 Y PRAMEF9 n/a
22 TRCN0000135112 CTCAATGCCAAGAGGAACAAA pLKO.1 462 CDS 100% 5.625 2.813 Y PRAMEF4 n/a
23 TRCN0000172316 CCCTTGACTGTGTTCGTAGAA pLKO.1 522 CDS 100% 4.950 2.475 Y PRAMEF9 n/a
24 TRCN0000135524 CCTCTCCAAATTCTCCTAGAA pLKO.1 1104 CDS 100% 4.950 2.475 Y PRAMEF4 n/a
25 TRCN0000135781 CGTAGAACTTTGGCTCAAGAA pLKO.1 536 CDS 100% 4.950 2.475 Y PRAMEF4 n/a
26 TRCN0000168676 GTGAGAACTTCTGGATGGTTT pLKO.1 412 CDS 100% 4.950 2.475 Y PRAMEF9 n/a
27 TRCN0000135740 CCTCTGATAAAGATGCCTTGT pLKO.1 288 CDS 100% 4.050 2.025 Y PRAMEF4 n/a
28 TRCN0000135479 GAAGGAGATTGTTACCCAGTT pLKO.1 845 CDS 100% 4.050 2.025 Y PRAMEF4 n/a
29 TRCN0000172984 CCGCAATATCAGAAGCATCCT pLKO.1 662 CDS 100% 2.640 1.320 Y PRAMEF6 n/a
30 TRCN0000137305 GCTGGAGCAGATTTGCTCAAA pLKO.1 1366 CDS 100% 0.495 0.248 Y PRAMEF4 n/a
31 TRCN0000172475 CTTCCTCAATGCCAAGAGGAA pLKO.1 458 CDS 100% 0.264 0.132 Y PRAMEF6 n/a
32 TRCN0000246044 GCATCAGACTGACCAATTATA pLKO_005 1075 CDS 100% 15.000 7.500 Y PRAMEF9 n/a
33 TRCN0000246042 TGACCTGGAGGCAGATCAATA pLKO_005 1487 CDS 100% 13.200 6.600 Y PRAMEF9 n/a
34 TRCN0000282227 GACCTGGAGGCAGATCAATAC pLKO_005 1488 CDS 100% 10.800 5.400 Y PRAMEF15 n/a
35 TRCN0000134814 GAACCCATCATTTCACACATA pLKO.1 1611 3UTR 100% 4.950 2.475 Y PRAMEF4 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_001010889.2, 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_10164 pDONR223 100% 99.8% 99.5% None 47G>A;1417C>G n/a
2 ccsbBroad304_10164 pLX_304 0% 99.8% 99.5% V5 47G>A;1417C>G n/a
3 ccsbBroadEn_10042 pDONR223 100% 99.5% 98.7% None (many diffs) n/a
4 ccsbBroad304_10042 pLX_304 0% 99.5% 98.7% V5 (many diffs) n/a
5 TRCN0000480613 TAAGAGGAAGGCTTACTTACGGTG pLX_317 29.7% 99.5% 98.7% V5 (many diffs) n/a
6 ccsbBroadEn_10041 pDONR223 100% 99.3% 98.5% None (many diffs) n/a
7 ccsbBroad304_10041 pLX_304 0% 99.3% 98.5% V5 (many diffs) n/a
8 TRCN0000465984 CACCCTATCGTCGAGGTCGACTGC pLX_317 21.9% 99.3% 98.5% V5 (many diffs) n/a
9 ccsbBroadEn_05489 pDONR223 100% 98.2% 97% None (many diffs) n/a
10 ccsbBroad304_05489 pLX_304 0% 98.2% 97% V5 (many diffs) n/a
11 TRCN0000465446 TTGACAGCCTACGGCAATACTGTC pLX_317 21.8% 98.2% 97% V5 (many diffs) n/a
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