CIS-BP Database: Catalog of Inferred Sequence Binding Preferences
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unc-39
(
Caenorhabditis elegans
)
Homeodomain
TF Information
Pfam ID
Interpro ID
Gene ID
CIS-BP ID
Sequence source
Animal TF db
PF00046 (Homeobox)
IPR001356
WBGene00006775
T224645_2.00
Ensembl (2018-Dec-8)
Link out
NCBI Gene Info:
Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Involved in several processes, including generation of neurons; mesodermal cell migration; and oviposition. Located in nucleus. Is expressed in several structures, including M cell; coelomocyte; neuroblasts; neurons; and somatic gonad precursor. Used to study branchiootorenal syndrome and myotonic dystrophy type 1. Human ortholog(s) of this gene implicated in branchiootorenal syndrome 2. Orthologous to human SIX4 (SIX homeobox 4) and SIX5 (SIX homeobox 5). [provided by Alliance of Genome Resources, Apr 2022]
Directly determined binding motifs
Name/Motif ID
Species
Forward
Reverse
Type/Study/Study ID
SR
Score
DBD
Identity
No direct experiments
Motifs from related TFs
Name/Motif ID
Species
Forward
Reverse
Type/Study/Study ID
SR
Score
DBD
Identity
SIX5
M08208_2.00
Homo sapiens
GARWTGTAGT
ACTACAWYTC
ChIP-seq
Contrino et al.(2012)
Mv121
0.761
0.528
SIX5
M08209_2.00
Homo sapiens
GGAGTTGT
ACAACTCC
ChIP-seq
Contrino et al.(2012)
Mv123
0.761
0.528
SIX5
M10738_2.00
Homo sapiens
Transfac license required
Transfac license required
Transfac
Matys et al.(2006)
V$SIX5_01
0.761
0.528
SIX5
M10739_2.00
Homo sapiens
Transfac license required
Transfac license required
Transfac
Matys et al.(2006)
V$SIX5_02
0.761
0.528
Six4
M00461_2.00
Mus musculus
NNKABMHNN
NNDKVTMNN
PBM
Berger et al.(2008)
Six4_2860
0.760
0.491
Six4
M00563_2.00
Drosophila melanogaster
NNDANMHNN
NNDKNTHNN
PBM
Busser et al.(2012a)
Six4
0.760
0.491
SIX4
M04939_2.00
Homo sapiens
NVYGATACVB
VBGTATCRBN
SELEX
Yin et al.(2017)
SIX4_eDBD_HT-SELEX
0.760
0.491
Six4
M06530_2.00
Drosophila melanogaster
TGABAC
GTVTCA
B1H
Mathelier et al.(2014)
MA0204.1
0.760
0.491
Six4
M06334_2.00
Drosophila melanogaster
WDDTGABAC
GTVTCAHHW
B1H
Zhu et al.(2011)
Six4_Cell_FBgn0027364
0.760
0.491
Six4
M06335_2.00
Drosophila melanogaster
NTGAKACB
VGTMTCAN
B1H
Zhu et al.(2011)
Six4_SOLEXA_2_FBgn0027364
0.760
0.491
Six4
M06336_2.00
Drosophila melanogaster
NNNTGABA
TVTCANNN
B1H
Zhu et al.(2011)
Six4_SOLEXA_FBgn0027364
0.760
0.491
Six4
M09198_2.00
Mus musculus
DGDAABHNSASNNN
NNNSTSNDVTTHCH
Misc
Kulakovskiy et al.(2013)
SIX4_MOUSE.H11MO.0.C
0.760
0.491
SIX4
M10646_2.00
Homo sapiens
Transfac license required
Transfac license required
Transfac
Matys et al.(2006)
V$SIX4_Q3
0.760
0.491
SIX4
M04940_2.00
Homo sapiens
NBGTAWCRHN
NDYGWTACVN
SELEX
Yin et al.(2017)
SIX4_eDBD_Methyl-HT-SELEX
0.760
0.491
Six2
M00425_2.00
Mus musculus
NNAYMYNN
NNRKRTNN
PBM
Berger et al.(2008)
Six2_2307
0.679
0.509
Six1
M00512_2.00
Mus musculus
NNDATMYNNN
NNNRKATHNN
PBM
Berger et al.(2008)
Six1_0935
0.679
0.509
SIX1
M05094_2.00
Homo sapiens
NNYGATACVB
VBGTATCRNN
SELEX
Yin et al.(2017)
SIX1_eDBD_HT-SELEX
0.679
0.509
SIX1
M05096_2.00
Homo sapiens
NNYGATAYVB
VBRTATCRNN
SELEX
Yin et al.(2017)
SIX1_FL_HT-SELEX
0.679
0.509
SIX2
M05285_2.00
Homo sapiens
NNYGATACSB
VSGTATCRNN
SELEX
Yin et al.(2017)
SIX2_eDBD_HT-SELEX
0.679
0.509
SIX2
M05287_2.00
Homo sapiens
NSGTRWCRYN
NRYGWYACSN
SELEX
Yin et al.(2017)
SIX2_FL_HT-SELEX
0.679
0.509
SIX1
M08130_2.00
Homo sapiens
GWAACCTGANM
KNTCAGGTTWC
ChIP-seq
Mathelier et al.(2014)
MA1118.1
0.679
0.509
SIX2
M08133_2.00
Homo sapiens
NNNTGWAACCTGAKMH
DKMTCAGGTTWCANNN
ChIP-seq
Mathelier et al.(2014)
MA1119.1
0.679
0.509
SIX1
M09142_2.00
Homo sapiens
DGWAAYHTGABMYN
NRKVTCADRTTWCH
Misc
Kulakovskiy et al.(2013)
SIX1_HUMAN.H11MO.0.A
0.679
0.509
SIX2
M09157_2.00
Homo sapiens
DGWAAYHHGABMH
DKVTCDDRTTWCH
Misc
Kulakovskiy et al.(2013)
SIX2_HUMAN.H11MO.0.A
0.679
0.509
Six2
M09185_2.00
Mus musculus
DGWAAYHYRABMYB
VRKVTYRDRTTWCH
Misc
Kulakovskiy et al.(2013)
SIX2_MOUSE.H11MO.0.A
0.679
0.509
Six1
M09579_2.00
Mus musculus
GWAAYHTGABMH
DKVTCADRTTWC
Misc
Heinz et al.(2010)
Myoblast-Six1_GSE20150
0.679
0.509
SIX1
M10684_2.00
Homo sapiens
Transfac license required
Transfac license required
Transfac
Matys et al.(2006)
V$SIX1_Q3_01
0.679
0.509
SIX1
M10685_2.00
Homo sapiens
Transfac license required
Transfac license required
Transfac
Matys et al.(2006)
V$SIX1_Q3
0.679
0.509
SIX1
M05095_2.00
Homo sapiens
NNYGATABNB
VNVTATCRNN
SELEX
Yin et al.(2017)
SIX1_eDBD_Methyl-HT-SELEX
0.679
0.509
SIX1
M05097_2.00
Homo sapiens
NNYGATAYSB
VSRTATCRNN
SELEX
Yin et al.(2017)
SIX1_FL_Methyl-HT-SELEX
0.679
0.509
SIX2
M05286_2.00
Homo sapiens
NBRTATCRNN
NNYGATAYVN
SELEX
Yin et al.(2017)
SIX2_eDBD_Methyl-HT-SELEX
0.679
0.509
SIX2
M05288_2.00
Homo sapiens
VBRTAWCRNN
NNYGWTAYVB
SELEX
Yin et al.(2017)
SIX2_FL_Methyl-HT-SELEX
0.679
0.509
so
M02117_2.00
Drosophila melanogaster
NDATMYNNN
NNNRKATHN
PBM
Weirauch et al.(2014)
pTH5690
0.679
0.491
so
M03800_2.00
Drosophila melanogaster
NYGATAYB
VRTATCRN
SELEX
Nitta et al.(2015)
so_1
0.679
0.491
so
M03801_2.00
Drosophila melanogaster
YKATAYNNNYGATAY
RTATCRNNNRTATMR
SELEX
Nitta et al.(2015)
so_2
0.679
0.491
so
M03802_2.00
Drosophila melanogaster
YGATACGTATCR
YGATACGTATCR
SELEX
Nitta et al.(2015)
so_3
0.679
0.491
so
M03803_2.00
Drosophila melanogaster
RTATCRYGATAC
GTATCRYGATAY
SELEX
Nitta et al.(2015)
so_4
0.679
0.491
so
M06497_2.00
Drosophila melanogaster
TGATAC
GTATCA
B1H
Mathelier et al.(2014)
MA0246.1
0.679
0.491
so
M06268_2.00
Drosophila melanogaster
NRTGATA
TATCAYN
B1H
Zhu et al.(2011)
So_Cell_FBgn0003460
0.679
0.491
so
M06269_2.00
Drosophila melanogaster
NNNTGATA
TATCANNN
B1H
Zhu et al.(2011)
So_SOLEXA_FBgn0003460
0.679
0.491
ceh-34
M00672_2.00
Caenorhabditis elegans
NNNRDAWNNN
NNNWTHYNNN
PBM
Narasimhan et al.(2015)
pTH9708
0.627
0.453
For this family, TFs with SR scores >
0.599
will likely have a similar motif
DNA Binding Domains
Protein ID
Domain
From
To
Sequence
F56A12.1
Homeodomain
222
275
YSFKDSSRKFLKQFFRNVSEYPTQEQKREISRATGLKIVQISNWFKNRRQRDKS
Links
Other
Homeodomain
family TFs
Other
Caenorhabditis elegans
TFs
543 Related TFs
Name
Species
Gene ID
Motif Evidence
SR
Score
Action
Invalid Input OrderBy