Lnc-DHX37-1:1
THRIL, TNF and HNRNPL related immunoregulatory long non-coding RNA, which was 1981 bp in length and located in 12q24.31, functions in the regulation of innate immune signaling.
Contents
Annotated Information
Transcriptomic Nomeclature
THRIL: TNF and HNRNPL related immunoregulatory long non-coding RNA(HGNC nomenclature)
"BRI3BP antisense RNA 1", BRI3BP-AS1, Linc1992, TCONS_00020260, "TNFalpha and hnRNPL related immunoregulatory LincRNA"[1]
Function
Linc1992 bound specifically to heterogenous nuclear ribonucleoprotein L (hnRNPL) and formed a functional linc1992-hnRNPL complex that regulated transcription of the TNFα gene by binding to its promoter, which may play important roles in the innate immune response and inflammatory diseases in humans[1].
Diseases
- Kawasaki disease, rheumatoid arthritis and inflammatory bowel disease[1]
Expression
Primers were as follows,
| Experiments | Primers | Forward Sequences | Reverse Sequences |
|---|---|---|---|
| qPCR | Bri3bp | 5'-CTGGGAGTGGATATGTTCGTG-3' | 5'-CTGGGCTGAAATACTGGGAC-3'[1] |
| TNFalpha | 5'-cagcctcttctccttcctgat-3' | 5'-gccagagggctgattagaga-3'[1] | |
| hnRNPL | 5'-AATGGAGTTCAGGCGATGG-3' | 5'-TCACCTTGTCCACTGAGATTG-3'[1] | |
| GAPDH | 5'-atggggaaggtgaaggtcg-3' | 5'-ggggtcattgatggcaacaat-3'[1] | |
| shRNA Designs | Bri3p | 5'-CCGGAAGGACCGAGCTCTTGGATGTCTCGAGACATCCAAGAGCTCGGTCCTTTTTTTG-3' | 5'-AATTCAAAAAAAGGACCGAGCTCTTGGATGTCTCGAGACATCCAAGAGCTCGGTCCTT-3'[1] |
| 5'-CCGGAAGCGTGTACATCCTGCACAACTCGAGTTGTGCAGGATGTACACGCTTTTTTTG-3' | 5'-AATTCAAAAAAAGCGTGTACATCCTGCACAACTCGAGTTGTGCAGGATGTACACGCTT-3'[1] | ||
| 5'-CCGGAAGCGCGGAGAAGAACAGCTACTCGAGTAGCTGTTCTTCTCCGCGCTTTTTTTG-3' | 5'-AATTCAAAAAAAGCGCGGAGAAGAACAGCTACTCGAGTAGCTGTTCTTCTCCGCGCTT-3'[1] |
Allelic Information and Variation
Please input allelic information and variation information here.
Evolution
Please input evolution information here.
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Labs working on this lncRNA
- Program for RNA Biology, Sanford-Burnham Medical Research Institute, La Jolla, CA 92037.[1]
References
- ↑ 1.00 1.01 1.02 1.03 1.04 1.05 1.06 1.07 1.08 1.09 1.10 Li Z, Chao TC, Chang KY, Lin N, Patil VS, Shimizu C, et al. The long noncoding RNA THRIL regulates TNFalpha expression through its interaction with hnRNPL[J]. Proceedings of the National Academy of Sciences of the United States of America. 2014,111(3):1002-7.
Basic Information
| Transcript ID |
lnc-DHX37-1:1 |
| Source |
LNCipedia2.1 |
| Same with |
NONHSAT031707, THRIL |
| Classification |
intergenic |
| Length |
2893 nt |
| Genomic location |
chr12-:125510478..125513897 |
| Exon number |
2 |
| Exons |
125510478..125511964,125512492..125513897 |
| Genome context |
|
| Sequence |
000001 GGTAGAGACG GGATTTCACT ATGTTGGCCA GGCTGGTCTC GAACTCCCGA CCGCAAGTGA TCCACCCGCC TTGGCCTCCC 000080
000081 AAAGTGCTGG GATTACAAGC TTGAGCCACT GCACCCAGCC TGGAAAGTAT ATTTATGAAA GGTTTGCACT CCACAAAAGC 000160 000161 ATCTTTGCTA GGGTGTCAAG GAAGAGATCA CTAAACCAAC CCCAACACAT CCATACAATT CCAGCAATCT AGAGAGGGCT 000240 000241 GGTCCTTTTC CTTTTCTGGA TTATTTTCTG TTCTCAGTAA AACAAGTATT TACTGTGATA CTGAAACACT GGGAAATTAA 000320 000321 CACTGATTAA GATATTTTAA ACACTGAGTC TTAATTATAA CAGAACCAGT TTTCATCAGA ATGCTTTTAC GTCACATTCA 000400 000401 GTGAAGTGTT ACGCTAATAT ATTCTACAGC CCTGAAGATA GAAAAAAGGT TTCTCTCCAG GTATGAGATA TGGTACAAAA 000480 000481 ATACATTTTT CCACATACAA AAGAGAGAAA AAAACAAAGA CATGTGGCGG GTGGCGAGGG GAGGCCCAAT CCCAACACCC 000560 000561 TACAAGGTTC CATGGAATGG AGAAGGAACA AAAAAATCCC CAATTATTTT GGGGTAAGAT GTGCCCCAGA AAAGGTGAAA 000640 000641 TCTATGCAAT AAAACCCAGG TTTTCTTCAA ATCTAGCATC TAGGATTTCT ATCAGAGTTT CAAATAATCA GAATTTCTAT 000720 000721 CAGAATTTCT ACCCTGAGGT GACACCTACT AACTGTAGGT TCTTTCATTA AAAATGAAGA CATCTTTCAC CAGAATGTAT 000800 000801 CAAGCTATAA AACTGGCTTC AGAGCCTACA CTTAGCCAGA GTGGAAAAAA AAAATAGTGC ATATTTTCGA CAGCAATTTT 000880 000881 GAATTGATGC TTGAGGTCTC AATCCACCAG CACCCAGATA TCATGTTACC TCCCTCAGTT GAATACAAGT TAAAATGATG 000960 000961 ATCTTATCGA GATCTCAATA GAGCACAGTG CCCTTCATGT TTCGGGTAAG AGGGTGGGAG GAGGAATGAA GCGGGTATTA 001040 001041 CACCCAGCCC AGTGACAGCT TAAGCCTTAA CATGCGGGCA TCTTACAATG ACCATAAACA AGGGAGGGGC CAAGGCAGGG 001120 001121 CTGGCGATCA TTAGCTTTGC GCACAGAATG CCATGTTTTC CCCTGGCCAA CATAAGCAAA GCTGTTTTAG TACCTAAACG 001200 001201 TGGTATAGCC AAATGCACAA AAGGAAAGAA GATAGAGATG ACCTCCCGAG TTATTTATAC CTTGTGCTAA AATAGATTCA 001280 001281 TCTACAAGTA TCTAAATGAC AAAACTAGAA TGATTTCAAC CCAGTAATCC TGTGTTCCAA TGTGCATGGA TAAAGATTTG 001360 001361 ATCTAGGCCC AGCGCGGTGG CTCACGCCTG TAATCCCAGC ACTTTGGGAT TATAGGGGTG AGCCACCCTG CCCAGCCTGC 001440 001441 TCCAGCAAAT CTTAAATATC CATGCACACT GAATAAACAT GCACCTGAAA CAGGTGCACG TTTCAGGAAG TGAATGGAAC 001520 001521 TCTCCAGGAG AGTTTGGGTC CCATCATGTG TACCTTAGAA ACAGAAGTCT CAAAAGTCTC AACAACATCC ACAAAAACAT 001600 001601 CTGCATCTGT TTTCCAGATA CTTGCAACCA AAAATAAAAC TTCACAGGAA CACTACACAA GAAGTGGTAG ACAGCTAAAT 001680 001681 CTTCTCCAAA CTGAGACCTG GACCATAAGG TCTTGGTTGT AGCAGGTCTG GCAGGGGTTA TCTATAAACC TGCACGCAGG 001760 001761 GCACTGTGAG CGGGTTGCCA GGGTACATCT GTGGCCAGGT AAGGGCCACA GAGACAGTCG TGATCCCCAG CAGCTTCAAA 001840 001841 GCTGCAAAAT GCTGGGCTTT TTTTTTTTTT TTTAAGATGA AGTCTTGCTC TGTTGCCTAG GCTGGAGTGC AGTGGCGTGA 001920 001921 TCTCGGCTCA CCGCAACCTC CACCTCCCAG GTTCAAGCAA TTCTCCTGCC TCAGCCTCCT GAGTAGCTGG ACTACAGGCA 002000 002001 CCCACCACCA TGCCTGACTA ATTTTTGTAT TTTTAGTAGA GACGGGGGTT TCACCATGTT GGCCAGGCTG GTCTTGAACT 002080 002081 CCTGACCTCA GGTGATCCAT ACTCCTCGGC CTCCCAAAGC GCTGGGATTA CAGGCATCAG CCACTGCGCC TGGCCTAGGG 002160 002161 CTTTCTTTTT TAAAAAACAA GTCCTAACAA AAGGGGGTTT CTACCAGCCC CTGAGCCACA CCTTCTGAAA CTCCCTTGCC 002240 002241 CAGGATCCCC ACAGCTGTCC ACCTCGCAAG TCCCACTCTC TGCCCACAGA GACTGCCTAA AAGGAGGACA CAACAGATTT 002320 002321 CAGATAAAAA GCACCTGTGT ATCGTAAATA TTTCAGGAAA AAGAATTCAG ATCTTTTCAA AGGCTTGCTT ATTGCTGCTA 002400 002401 ATTGTTCCTG AGGATCTTTC TAAGCAGCAA TATACTTGAG AATATTAGCT GCTACTGTTT GTTTTCCCTC TAAGGTCCTG 002480 002481 AGGAAATCAA AAGAAAAAAA AAAAAACCCT CAAGGGTATA GCTTTTGTAT ATAGCCCTAG TGAGCAAACT GCAAATTGGG 002560 002561 ACATGCAGTA GATTCTGGAG CAATCTCCAA TCCTTACCAG GTACTTCCTG GCATCAAATC CCCAGGACAT TTCTTGGCCC 002640 002641 CTCCTTGCAT TTTCCGTTTC AAAATGTTGA GGTTAAAATA CATCGAAGCA CAGAGGGAAG AAAATCTCAG GTCTTCTAGA 002720 002721 AATGGCGATG TCTTCATTTA AAAATAGGAC TGATGGGGGC TTGGCAGGGG TCTCTAGGAT CCAAAAGAGG TTGAGTTGCA 002800 002801 TCCTGCAGCC CAACTGTCCA CATTTAGAAG TGACAACATT CATGAACTAA GTCAACATCC ACCAAAAATA ACATGAAATA 002880 002881 AAGCTCACAG TTT |
Predicted Small Protein
| Name | Lnc-DHX37-1:1_smProtein_77:235 |
| Length | 52 |
| Molecular weight | 6005.7654 |
| Aromaticity | 0.0769230769231 |
| Instability index | 65.6576923077 |
| Isoelectric point | 9.02130126953 |
| Runs | 9 |
| Runs residual | 0.0227075184702 |
| Runs probability | 0.0473316453708 |
| Amino acid sequence | MHLKQVHVSGSEWNSPGEFGSHHVYLRNRSLKSLNNIHKNICICFPDTCNQK |
| Secondary structure | LLEEEEEEELLLLLLLLLLLLEEEEEELLLHHHHHHHHLLEEEELLLLLLLL |
| PRMN | - |
| PiMo | - |
