LIM-6

WormBase ID: WBGene00002988

WormBase description: Is an ortholog of human LMX1A (LIM homeobox transcription factor 1 alpha) and LMX1B (LIM homeobox transcription factor 1 beta). Is predicted to have DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II regulatory region sequence-specific DNA binding activity. Is involved in several processes, including gamma-aminobutyric acid biosynthetic process; neuron differentiation; and uterus morphogenesis. Localizes to nucleus. Is expressed in several structures, including amphid neurons; excretory system; hermaphrodite gonad; nerve ring neurons; and ventral nerve cord. Human ortholog(s) of this gene are implicated in congenital ptosis; hypopituitarism; and myopathy (multiple).

Reporter verification: Verified by PCR and sequencing
Primers used to verify fosmid reporter: 5'-GTTGGTTGGCTGACAGAA-3'

Strain name: SYS95

Cross: OP388 x JIM113

Strain genotype: ujIs113 (pie-1p::mCherry::H2B; nhr-2p::mCherry::his-24::let858 3'UTR; unc-119(+)) II; wgIs388 (lim-6::TY1::EGFP::3xFLAG + unc-119(+))

Expression pattern: Neuronal-specific

Lineage expression pattern

350 stage

600 stage

3D expression pattern

4-cells

8-cells

15-cells

28-cells

~50-cells

~100-cells

~200-cells

~350-cells

~500-cells

~600-cells

600-cells

bean-stage

Inferred TF relationships

Based on expression similarity (strong, medium, weak): CEH-30, REF-2, CEH-27


Based on ChIP-seq (directly from ModERN database, targets from L1 stage ChIP-seq data are underlined)

Targeting: CEBP-1, EGRH-1, ETS-5, LIM-7, NFI-1, NHR-102, RCOR-1, SWSN-7, ZFH-2

Targeted by: EGL-13

Based on reannotated ChIP-seq (peaks are assigned to a target if it is located within 2 kb relative to the transcription start site; targets from L1 stage ChIP-seq data are underlined)

Targeting: CEBP-1, ETS-5, NFI-1, RCOR-1, SWSN-7

Targeted by: EGL-13