Gene Dmel\Cyt-c-d

Experimentally Determined Recombination Data

Location

2-[52]

Left of (cM)

Right of (cM)

Notes

Molecular Map Data

Gene Order (in direction of increasing cytology)

References

Gene Order (overall orientation not stated)

References

Gene Model & Products

Please see the GBrowse view of Dmel\Cyt-c-d for information on other features

Comments on Gene Model

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Associated CDS (aa)

Cyt-c-d-RA

FBtr0080888

NM_057816

877

105

Additional Transcript Data & Comments

Reported size (kB)

2.1 (northern blot)

Comments

External Data

Crossreferences

Polypeptide Data

Annotated Polypeptides

Name

FlyBase ID

Predicted MW (kD)

Length (aa)

Theoretical pI

RefSeq ID

GenBank protein

Cyt-c-d-PA

FBpp0080445

11.4

105

9.95

NP_477164

AAF53553

Additional Polypeptide Data & Comments

Reported size (kD)

105 (aa)

Comments

External Data

(BDGP Project Members, 2000-, Oliver, 2001.8.16)

Crossreferences

InterPro domains - A database of protein families, domains, and functional sites

•

Cytochrome c, class IA/ IB (IPR002327)

Cytochrome c, class I (IPR003088)

Cytochrome c, monohaem (IPR009056)

Cytochrome c-550-like (IPR003218)

MitoDrome - A database of annotated Dmel nuclear genes encoding mitochondrial proteins

•

MTDROME13263

Sequences Consistent with the Gene Model

DDBJ /
EMBL /
GenBank

DNA sequence

Protein sequence

Name

P04657

UniProtKB/TrEMBL

Maps to

(FlyBase, 1992-)

Does NOT map to

Identified with

(Oliver, 2001.8.16)

LP05614

D1323

(BDGP Project Members, 1994-1999)

Mapped Features & Mutations

Please see GBrowse or insertion reports for information on insertions of transgenic constructs and features not listed here

Type

Symbol & Location

Additional Notes

References

point mutation

Cyt-c-d[Z21091]
2L:16,719,320..16,719,320

comment=TGG to TGA
evidence=experimental
na_change=G16719320A
pr_change=W62@|Cyt-c-d-PA
reported_pr_change=W62@

External Data

Crossreferences

Expression Data

FlyBase-Curated Data

Transcript and
Protein data

Please see the FlyBase Gene Expression Report for details of gene expression from the literature.

Summary of Transcript Expression

Stage

Tissue/Position

Reference

adult stage

adult abdomen

larval stage-adult stage

adult stage

adult thorax

adult stage

adult head

Marker for

Subcellular Localization

CV Term

Summary of Polypeptide Expression

Stage

Tissue/Position

Reference

Marker for

Subcellular Localization

CV Term

External Data & Images

major mitochondrial derivative

Alleles & Phenotypes

Summary of Allele Phenotypes

Lethality

Allele

viable

Cyt-c-d^bln1

viable (with Df(2L)H20), with Scer\GAL4[-]:

Cyt-c-d^EP2049

viable (with Cyt-c-d^EP2305), with Scer\GAL4[-]:

Cyt-c-d^EP2049

viable (with Cyt-c-d^EP2049), with Scer\GAL4[-]:

Cyt-c-d^EP2305

viable, with Scer\GAL4[-]:

Sterility

Allele

male sterile

male sterile (with Df(2L)H20)

Cyt-c-d^bln1

male sterile (with Df(2L)H20), with Scer\GAL4[-]:

male sterile | recessive

Cyt-c-d^bln1

male sterile, with Scer\GAL4[-]:

Cyt-c-d^EP2305

male semi-sterile (with Cyt-c-d^EP2305), with Scer\GAL4[-]:

Cyt-c-d^EP2049

male semi-sterile (with Cyt-c-d^EP2049), with Scer\GAL4[-]:

Cyt-c-d^EP2305

male semi-sterile, with Scer\GAL4[-]:

Cyt-c-d^EP2049

Phenotype manifest in

Allele

spermatid

spermatid axoneme

Cyt-c-d^bln1

Cyt-c-d^bln1

minor mitochondrial derivative

Cyt-c-d^bln1

Classical Alleles ( 7 )

For All Classical Alleles Show

Allele of Cyt-c-d	Class	Mutagen	Stocks	Known lesion
Cyt-c-d^EP2049		P-element activity	1	Yes
Cyt-c-d^EP2305		P-element activity	1	Yes
Cyt-c-d^Z21091		ethyl methanesulfonate	0	Yes
Cyt-c-d^bln1	loss of function	P-element activity	2	Yes
Cyt-c-d^d01204		P-element activity	1	--
Cyt-c-d^d08846		P-element activity	0	--
Cyt-c-d^f03856		piggyBac transposase	1	--

Alleles Carried on Transgenic Constructs ( 5 )

For All Alleles Carried on Transgenic Constructs Show

Allele of Cyt-c-d	Mutagen	Stocks	Known lesion
Cyt-c-d^GD7970	in vitro construct \| RNAi in vitro construct \| regulatory fusion	2	Yes
Cyt-c-d^Hsp83.PA	in vitro construct \| regulatory fusion	0	Yes
Cyt-c-d^{IE1.T:Ivir\HA1}	in vitro construct \| coding region fusion	0	Yes
Cyt-c-d^Scer\UAS.cAa	in vitro construct \| regulatory fusion	0	Yes
Cyt-c-d^dsRNA.cDa	in vitro construct \| RNAi	0	Yes

Aneuploid Aberrations

Useful deficiency

Df(2L)H20

Useful duplication

Dp(2;2)SD5^rv3

Dp(2;2)m-3

Not disrupted in

Df(2L)r10

(Spradling et al., 1999, BDGP Project Members, 1994-1999)

Df(2L)rd9

(Roote, 1997.8.13)

Disrupted in

Df(2L)Exel6039

(Ryder, 2004.4.26)

Df(2L)Exel7066

(Ryder, 2004.4.26)

Df(2L)H20

(Castrillon et al., 1993)

Transgenic Constructs & Insertions

Transgenic Constructs

Type of construct

Name

Expression data

UAS construct

P{GD7970}

heat-shock construct

P{Hsp83-Cyt-c-d.A}

Insertions

Type of insertions

Name

Expression data

miscellaneous insertions

PBac{WH}Cyt-c-d^f03856

insertion of enhancer trap

P{PZ}Cyt-c-d^bln1

Yes

insertion of mobile activating element

Related Comments

Please look at the allele reports for the complete phenotype data

Apparently the structural gene for one of two cytochrome-c type enzymes, which differ from each other in 32/107 amino-acid residues. First isolated from a Charon-4 library using mouse cytochrome-c gene sequence as a probe. Cyt-c-d (sequence D3) expressed at constant, but relatively low, level throughout development; Cyt-c-p (sequence D4) expressed at varying, but relatively high, levels throughout development. Amino acid sequence also given in Fasman (1977).

Postmeiotic differentiation defect.

(Castrillon et al., 1993)

Cyt-c-d encodes a functional cytochrome c protein. Cyt-c-d is expressed at constant low levels throughout development and the predicted polypeptide sequence differs from Cyt-c-p at 32 amino acid residues. Cyt-c-d and Cyt-c-p are located 3.5kb apart and have arisen from an ancient duplication event.

electron carrier activity

A cDNA clone for the thoracic muscle cytochrome c gene from M.sexta has been used to isolate the corresponding major thoracic muscle cytochrome c gene from D.melanogaster. Hybridisation studies reveal that Cyt-c-d is expressed at almost undetectable levels in adult thoracic muscle tissue. Cyt-c-d shares limited nucleotide homology with Cyt-c-p.

(Swanson et al., 1985)

The Cyt-c-d protein could not be detected as a functional cytochrome molecule at any stage of development.

(Inoue et al., 1986)

Gene Ontology: Function, Process & Cellular Component ( 11 )

Molecular Function

CV term

Evidence

References

inferred from direct assay

(Swiss-Prot Project Members, 1987.8.13)

non-traceable author statement

inferred from sequence or structural similarity with UniProtKB:P00001

(Sardiello et al., 2003.6.11)

electron transporter, transferring electrons from CoQH2-cytochrome c reductase complex and cytochrome c oxidase complex activity

inferred from sequence or structural similarity with UniProtKB:P00031

(FlyBase, 1992-)

heme binding

inferred from electronic annotation with InterPro:IPR002327, InterPro:IPR003088, InterPro:IPR009056

(FlyBase Curators et al., 2004-)

iron ion binding

inferred from electronic annotation with InterPro:IPR002327, InterPro:IPR003088, InterPro:IPR009056

(FlyBase Curators et al., 2004-)

Biological Process

CV term

Evidence

References

caspase activation

inferred from mutant phenotype

(Arama et al., 2003)

inferred from mutant phenotype

electron transport (obsolete GO:0006118)

non-traceable author statement

(Swiss-Prot Project Members, 1987.8.13)

inferred from sequence or structural similarity with UniProtKB:P00001

(Sardiello et al., 2003.6.11)

oxidative phosphorylation

inferred from sequence or structural similarity with SGD_LOCUS:CYC1; SGD:S0003809

sperm individualization

inferred from mutant phenotype

(Arama et al., 2003)

inferred from mutant phenotype

mitochondrial inner membrane

Cellular Component

CV term

Evidence

References

inferred from sequence or structural similarity with SGD_LOCUS:CYC1; SGD:S0003809

(Swiss-Prot Project Members, 1987.8.13)

mitochondrial matrix

non-traceable author statement

inferred from sequence or structural similarity with UniProtKB:P00001

(Sardiello et al., 2003.6.11)

mitochondrion

inferred from direct assay

(Morrow et al., 2000)

inferred from expression pattern

(Dorstyn et al., 2004)

Sequence Ontology: Class of Gene

protein_coding_gene

nuclear_gene

Interactions & Pathways

Summary of Genetic Interactions

Interacts with

Please look at the allele data for full details of the genetic interactions

Cyt-c-d allele

Gene

References

unspecified

Cyt-c-p

External Data

Orthologs

Genome-wide drosophilid orthologs

Curated drosophilid orthologs

Dpse\GA12159