ZRdb KZFP & Repeats
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Human_ZNF540

  • Protein
    Zinc finger protein 540
  • Length
    660
  • Organism
    Homo sapiens (Human)
  • Time of emergence
    94.0 Mya
  • Time of Changing in binding specificity
    87.0 Mya
  • Uniprot_ID
    Q8NDQ6
  • NCBI_ID
    163255
Sequence:
MAHALVTFRDVAIDFSQKEWECLDTTQRKLYRDVMLENYNNLVSLGYSGSKPDVITLLEQGKEPCVVARDVTGRQCPGLLSRHKTKKLSSEKDIHEISLSKESIIEKSKTLRLKGSIFRNEWQNKSEFEGQQGLKERSISQKKIVSKKMSTDRKRPSFTLNQRIHNSEKSCDSHLVQHGKIDSDVKHDCKECGSTFNNVYQLTLHQKIHTGEKSCKCEKCGKVFSHSYQLTLHQRFHTGEKPYECQECGKTFTLYPQLNRHQKIHTGKKPYMCKKCDKGFFSRLELTQHKRIHTGKKSYECKECGKVFQLIFYFKEHERIHTGKKPYECKECGKAFSVCGQLTRHQKIHTGVKPYECKECGKTFRLSFYLTEHRRTHAGKKPYECKECGKSFNVRGQLNRHKTIHTGIKPFACKVCEKAFSYSGDLRVHSRIHTGEKPYECKECGKAFMLRSVLTEHQRLHTGVKPYECKECGKTFRVRSQISLHKKIHTDVKPYKCVRCGKTFRFGFYLTEHQRIHTGEKPYKCKECGKAFIRRGNLKEHLKIHSGLKPYDCKECGKSFSRRGQFTEHQKIHTGVKPYKCKECGKAFSRSVDLRIHQRIHTGEKPYECKQCGKAFRLNSHLTEHQRIHTGEKPYECKVCRKAFRQYSHLYQHQKTHNVI
Domain KRAB, ZF, and degenerated ZF domains of KZFPs. :
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# Domain name Pos
1 KRAB 6..77
2 C2h2 187..209
3 C2h2 215..237
4 C2h2 243..265
5 C2h2 271..293
6 C2h2 299..321
7 C2h2 327..349
8 C2h2 355..377
9 C2h2 383..405
10 C2h2 411..433
11 C2h2 439..461
12 C2h2 467..489
13 C2h2 495..517
14 C2h2 523..545
15 C2h2 551..573
16 C2h2 579..601
17 C2h2 607..629
18 C2h2 635..657
Gene Ontology Annotation The Gene Ontology (GO) describes knowledge of the biological domain based on three aspects: Molecular function, Biological process, and Cellular component. :
# Type TERM
1 Cellular Component cytoplasm
2 Cellular Component cytosol
3 Cellular Component intracellular membrane-bounded organelle
4 Cellular Component nucleoplasm
5 Cellular Component nucleus
6 Molecular Function DNA-binding transcription factor activity, RNA polymerase II-specific
7 Molecular Function metal ion binding
8 Molecular Function mRNA regulatory element binding translation repressor activity
9 Molecular Function RNA polymerase II cis-regulatory region sequence-specific DNA binding
10 Biological Process negative regulation of DNA-templated transcription
11 Biological Process negative regulation of translation
12 Biological Process regulation of transcription by RNA polymerase II
Is there ChIP-seq data Is there any ChIP-seq data available for these KZFPs in the Cistrome database? :
Yes
Motif(meme-ChIP) DNA binding motifs of KZFPs obtained using meme-ChIP and mapped using pylogo. :
Forward:
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Reverse:
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Peak overlapping A ChIP-seq peak of KZFPs that intersects with a certain repeats sequences on the genome. :
# Repeats name Record number Significance Emergence time(Mya) Time correlation with KZFP
1 LTR10A 3 **** 28.9 Weakly correlated
2 L1PA2 2 n.s 15.2 Weakly correlated
3 L1PA5 2 n.s 19.6 Weakly correlated
4 L1PA4 2 n.s 19.6 Weakly correlated
5 L1PA3 1 n.s 19.6 Weakly correlated
6 Penelope1_Vert 1 **** 319.0 Weakly correlated
7 MamRTE1 1 ** 99.0 Moderately correlated
8 MIRc 1 n.s 99.0 Moderately correlated
9 MIRb 1 n.s 99.0 Moderately correlated
10 MER50 1 ** 43.0 Weakly correlated
11 MER39B 1 ** 74.0 Weakly correlated
12 LTR13 1 ** 19.6 Weakly correlated
13 L2c 1 n.s 99.0 Moderately correlated
14 L2a 1 n.s 99.0 Moderately correlated
15 L2 1 n.s 99.0 Moderately correlated
16 AluJb 1 n.s 74.0 Weakly correlated
17 L1PA15-16 1 * 74.0 Weakly correlated
18 L1PA11 1 n.s 74.0 Weakly correlated
19 L1P1 1 * 19.6 Weakly correlated
20 L1MC4 1 n.s 99.0 Moderately correlated
21 HAL1 1 n.s 99.0 Moderately correlated
22 AluYm1 1 * 19.6 Weakly correlated
23 AluY 1 n.s 74.0 Weakly correlated
24 AluSz6 1 n.s 74.0 Weakly correlated
25 AluSx1 1 n.s 74.0 Weakly correlated
26 AluSc8 1 n.s 74.0 Weakly correlated
27 AluSc5 1 * 74.0 Weakly correlated
Motif in Repeats The motif of KZFPs identified by the MEME-ChIP is present in repeats sequences. :
# Repeats name Record number Significance Emergence time(Mya) Time correlation with KZFP
1 L2c 1 n.s 99.0 Moderately correlated
Motif in Repeats Consensus The motif of KZFPs identified by MEME-ChIP analysis can be utilized to locate the corresponding region within the consensus sequences of repeats. :
# Repeats name Emergence time(Mya) Time correlation with KZFP