Summary
[Wormbase] him-1 encodes a homolog of the conserved eukaryotic protein, SMC1, a member of the SMC (structural maintenance of chromosomes) superfamily that is required for embryonic viability, germline mitosis, chromosome pairing, and the segregation of mitotic chromosomes; HIM-1 can interact with SMC-3 and is required for DPY-28 localization to meiotic chromosomes; associates with the chromatin of transition-zone nuclei
.
Wormbase predicts 2 models from 2 genes.
AceView summary
According to AceView, this gene is
expressed at high level, 2.7 times the average gene in this release, mostly from L1 larvae to adult [Kohara cDNAs]. The
sequence of this gene is defined by
35 cDNA clones, some from whole animal (seen 2 times). We annotate
structural defects or features in 8 cDNA clones.
The gene contains
10 distinct gt-ag introns. Transcription produces one mRNA. There are 2 validated
alternative polyadenylation sites (see the
diagram).
The spliced mRNA putatively encodes
a good protein, altogether
2 different isoforms (1 complete, 2 COOH complete), some containing
domains SMCs flexible hinge, RecF/RecN/SMC protein, N-terminal [Pfam], a coiled coil stretch
[Psort2].
Function: There are
3 articles specifically referring to this gene in PubMed. In addition we point
below to 16 abstracts. This essential gene is associated to a
phenotype (High Incidence of Males, increased X chromosome loss, shared oogenic and spermatogenic protein copurified with chromatin). Proteins are expected to have molecular
functions (ATP binding activity, protein binding activity) and to
localize in chromosome.
Please quote:
AceView: a comprehensive cDNA-supported gene and transcripts annotation, Genome Biology 2006, 7(Suppl 1):S12
Map: This essential gene him-1 maps on chomosome I at position -0.57 (interpolated). In AceView, it covers
6.12 kb, from 4957668 to 4951547 (WS190), on the reverse strand.
Links to: WormBase,
NextDB,
RNAiDB.
as
Other names: The gene is also known smc-1, in Wormgenes/AceView by its positional name 1F522, in Wormbase by its cosmid.number name F28B3.7, in NextDB, the Nematode expression pattern database, as CEYK2184.
The closest human genes, according to BlastP, are the AceView genes
SMC1A (e=2 10^-50),
SMC1B (e=3 10^-47).
The closest mouse genes, according to BlastP, are the AceView genes
Hsd17b10andSmc1a (e=10^-50),
Smc1b (e=10^-48),
Smc1a (e=10^-50).
The closest A.thaliana gene, according to BlastP, is the AceView gene
TTN8andAT3G54680 (e=6 10^-32)
Legend
Introns are depicted by broken lines; the height of the top of each intron reflects the relative number of clones supporting this intron.
]^[ A pink broken line denotes an intron with standard boundaries (gt-ag or gc-ag) that is exactly supported (i.e. a cDNA sequence exactly matches the genome over 16 bp, 8 on both sides of the intron).
] ^ ] A blue broken line denotes non-standard introns, exactly supported, but with non-standard at-ac or any other boundaries.
]-[ Pink and
] - ] blue straight lines represent 'fuzzy' introns of the standard and non-standard types respectively, those introns do not follow the 16 bp rule. Black straight lines ]-[denote gaps in the alignments.
Exons: Wide filled pink areas represent putative protein coding regions, narrow empty pink boxes represent the 5'UTR (on the left) and 3' UTR (on the right). Flags identify validated endings: cap site on the 5' side, polyadenylation site on the 3' side. Filled flags correspond to frequent events while empty flags have lesser supporting cDNAs (yet all are validated); at the 3' side, black flags are associated to the main AATAAA signal,
blue flags to any single letter variant of the main . More explanations are given in the
gene help file
