Basic Information

Type: gene

Biological Identity

Species

malus_domestica

Chromosome

Chr11

Orthogroup ID

OG0000757

Physical Location & Seq

Genomic Coordinates Forward (+)

3671972 .. 3672817

Gene Structure 846 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

MD11G1042700.v1.1.491

Sequence Viewer

CDS Protein Promoter (2k)

Length: 846 bp

ATGAAGAACGTTGAGATTCGATCCGTGTGGCAGGACAATTTGGAATCCGAGTTTGCTCTAATTCAGTCCATGATTCGTTACTACCCTTTCCTCTCCATAGACACCGAATTCCCGGGCACAGTTTTCCAGTATTCCGATGTCCACACCCCCTTACCAACCCCGGCATCCAGATACAAGCTCATGAAGGCCAACGTGGACAACACCAACATAATCCAGTTAGGTCTAACACTCTCCGATAACAACGGAAACTTGCCCAGTTTCGGCACTAATATCTGCTACATATGGGAGTTCAACTTCAGGGACTTCGATATCGACCGTGACCTTCAGAATATAAGTTCGATTAAGTTACTTGAGAAGCAAGGAATCGATTTCTTGAAAAACAAGGAAAAGGGTATTCGTTCTTCCGACTTCTCCTTGCTGTGGCATAAATCTTCGCTGTTCTCCAAGATATCCCGGTTGACATGGGTGACTTTCCATAGCGCTTACGATTTCGGGTACCTGATCAAGATTCTGACTAACAAACGGTTGCCGCCGGACATTAACGATTTCATGTCCACGATGGATATGTACTTTGGGAAAAAAGTGTACGACATCAAAAGCATGATTAGGGTTTCTCGAGGGATTTATGGAGGATTAGAGAGAGTGGCTAACAAGCTTGGGGTTGATCGTGTGGCTGGGAAGAGTCATCAGGCTGCTTCTGATAGTTTGCTGACTTGGCAAACGTTTCAGAAGCTTACACAAGTGTACTACACAAGTATGCAAGGGGAAGACAACTGCAGTTTAGATTTGAGAGATTTAGATTGGTCCCAAAGGGTTTTGTATGGTTTGGAAGTTGAGGCTCATTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

ko03018 map03018

Pfam Domains

Protein Families

CAF1 RVT_3

Protein Analysis

282

Amino Acids

32.55

Weight (kDa)

6.53

Isoelectric Point (pI)

32.14

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
CAF1	PF04857	9 - 133	1.3e-13	CAF1 family ribonuclease

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0000757)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G06450 AT1G27820 AT1G27890 AT1G61470 AT3G44240
fragaria_vesca	FvH4_6g28110 FvH4_6g28140 FvH4_6g29280 FvH4_6g29280
malus_domestica	MD03G1041900.v1.1 MD09G1229300.v1.1 MD11G1042700.v1.1 MD12G1082100.v1.1 MD14G1080800.v1.1
prunus_persica	Prupe.1G188200_v2.0.a1 Prupe.1G190800_v2.0.a1 Prupe.1G190900_v2.0.a1 Prupe.3G105100_v2.0.a1 Prupe.7G010200_v2.0.a1
pyrus_communis	pycom09g14790 pycom14g07010
rosa_chinensis	RchiOBHm_Chr2g0132091 RchiOBHm_Chr2g0132101 RchiOBHm_Chr2g0134441 RchiOBHm_Chr2g0134461 RchiOBHm_Chr2g0136851 RchiOBHm_Chr2g0167821 RchiOBHm_Chr2g0167861 RchiOBHm_Chr2g0167901 RchiOBHm_Chr2g0167921 RchiOBHm_Chr6g0266841
rosa_laevigata	RLG00000019225 RLG00000019226 RLG00000019393
rosa_multiflora	Rmu_sc0001299.1_g000004 Rmu_sc0005571.1_g000018
rosa_roxburghii	Rroxscaffold_2G00110210 Rroxscaffold_2G00110240 Rroxscaffold_2G00112400 Rroxscaffold_3G00239330 Rroxscaffold_4G00313080
rosa_rugosa	Rorug02G0302000 Rorug02G0302200 Rorug02G0317200 Rorug02G0317200 Rorug03G0220600
rosa_samantha	Rh2AG355100 Rh2AG355200 Rh2AG369800 Rh2AG369900 Rh2AG384800 Rh2CG338700 Rh2CG338800 Rh2CG353700 Rh2CG371400 Rh2DG370100 Rh2DG377900 Rh2DG378000 Rh2DG392800 Rh2DG392900 Rh2DG408200 Rh6BG148800 Rh6BG149300 Rh6CG159200 Rh6DG133000 Rh6DG133400
rosa_wichuraiana	Rw1G013790 Rw2G028830 Rw2G028840 Rw2G031470

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc65I	GGTACC	1 cut(s)	495
AccB1I	GGYRCC	1 cut(s)	495
AciI	CCGC	1 cut(s)	530
AclI	AACGTT	2 cut(s)	9, 722
AclWI	GGATC	1 cut(s)	15
AcsI	RAATTY	1 cut(s)	107
AcuI	CTGAAG	2 cut(s)	280, 308
AfaI	GTAC	4 cut(s)	497, 569, 587, 746
AfeI	AGCGCT	1 cut(s)	481
AfiI	CCNNNNNNNGG	2 cut(s)	260, 420
AgsI	TTSAA	2 cut(s)	292, 376
AluBI	AGCT	3 cut(s)	178, 655, 733
AluI	AGCT	3 cut(s)	178, 655, 733
AlwI	GGATC	1 cut(s)	15
Ama87I	CYCGRG	2 cut(s)	112, 615
Aor51HI	AGCGCT	1 cut(s)	481
AoxI	GGCC	1 cut(s)	186
ApeKI	GCWGC	1 cut(s)	692
ApoI	RAATTY	1 cut(s)	107
Asp718I	GGTACC	1 cut(s)	495
AspLEI	GCGC	1 cut(s)	482
AspS9I	GGNCC	1 cut(s)	804
AsuC2I	CCSGG	4 cut(s)	113, 114, 161, 454
AsuHPI	GGTGA	1 cut(s)	478
AvaI	CYCGRG	2 cut(s)	112, 615
AvaII	GGWCC	1 cut(s)	804
BaeGI	GKGCMC	1 cut(s)	119
BanI	GGYRCC	1 cut(s)	495
BarI	GAAGNNNNNNTAC	2 cut(s)	385, 417
BbsI	GAAGAC	1 cut(s)	774
BbvI	GCAGC	1 cut(s)	679
BccI	CCATC	1 cut(s)	553
BclI	TGATCA	1 cut(s)	501
BcnI	CCSGG	4 cut(s)	113, 114, 161, 454
BfmI	CTRYAG	1 cut(s)	775
BfoI	RGCGCY	1 cut(s)	483
BisI	GCNGC	2 cut(s)	530, 693
BlsI	GCNGC	2 cut(s)	531, 694
Bme1390I	CCNGG	4 cut(s)	113, 114, 161, 454
Bme18I	GGWCC	1 cut(s)	804
BmeT110I	CYCGRG	2 cut(s)	112, 615
BmgT120I	GGNCC	1 cut(s)	804
BmiI	GGNNCC	2 cut(s)	497, 806
BmrFI	CCNGG	4 cut(s)	113, 114, 161, 454
BmrI	ACTGGG	1 cut(s)	249
BmsI	GCATC	1 cut(s)	173
BmuI	ACTGGG	1 cut(s)	249
BpiI	GAAGAC	1 cut(s)	774
BpuEI	CTTGAG	1 cut(s)	371
BpuMI	CCSGG	4 cut(s)	113, 114, 161, 454
Bsa29I	ATCGAT	1 cut(s)	366
BsaJI	CCNNGG	2 cut(s)	112, 159
Bsc4I	CCNNNNNNNGG	2 cut(s)	260, 420
Bse1I	ACTGG	3 cut(s)	127, 214, 255
BseCI	ATCGAT	1 cut(s)	366
BseDI	CCNNGG	2 cut(s)	112, 159
BseGI	GGATG	1 cut(s)	164
BseLI	CCNNNNNNNGG	2 cut(s)	260, 420
BseNI	ACTGG	3 cut(s)	127, 214, 255
BseSI	GKGCMC	1 cut(s)	119
BseXI	GCAGC	1 cut(s)	679
BseYI	CCCAGC	1 cut(s)	674
Bsh1285I	CGRYCG	1 cut(s)	316
BshFI	GGCC	1 cut(s)	188
BshNI	GGYRCC	1 cut(s)	495
BshVI	ATCGAT	1 cut(s)	366
BsiEI	CGRYCG	1 cut(s)	316
BsiHKCI	CYCGRG	2 cut(s)	112, 615
BsiSI	CCGG	4 cut(s)	113, 161, 454, 533
BslFI	GGGAC	2 cut(s)	314, 790
BslI	CCNNNNNNNGG	2 cut(s)	260, 420
BsmFI	GGGAC	2 cut(s)	314, 790
BsnI	GGCC	1 cut(s)	188
BsoBI	CYCGRG	2 cut(s)	112, 615
Bsp1286I	GDGCHC	1 cut(s)	119
Bsp143I	GATC	3 cut(s)	20, 501, 664
BspACI	CCGC	1 cut(s)	530
BspANI	GGCC	1 cut(s)	188
BspDI	ATCGAT	1 cut(s)	366
BspHI	TCATGA	1 cut(s)	180
BspLI	GGNNCC	2 cut(s)	497, 806
BspMAI	CTGCAG	1 cut(s)	779
BspPI	GGATC	1 cut(s)	15
BspT107I	GGYRCC	1 cut(s)	495
BsrI	ACTGG	3 cut(s)	127, 214, 255
BssECI	CCNNGG	2 cut(s)	112, 159
BssMI	GATC	3 cut(s)	20, 501, 664
Bst4CI	ACNGT	3 cut(s)	121, 317, 525
Bst6I	CTCTTC	1 cut(s)	674
BstF5I	GGATG	1 cut(s)	164
BstH2I	RGCGCY	1 cut(s)	483
BstHHI	GCGC	1 cut(s)	482
BstKTI	GATC	3 cut(s)	23, 504, 667
BstMBI	GATC	3 cut(s)	20, 501, 664
BstMCI	CGRYCG	1 cut(s)	316
BstMWI	GCNNNNNNNGC	1 cut(s)	715
BstSCI	CCNGG	4 cut(s)	111, 112, 159, 452
BstSFI	CTRYAG	1 cut(s)	775
BstSLI	GKGCMC	1 cut(s)	119
BstV1I	GCAGC	1 cut(s)	679
BstV2I	GAAGAC	1 cut(s)	774
Bsu15I	ATCGAT	1 cut(s)	366
BsuRI	GGCC	1 cut(s)	188
BsuTUI	ATCGAT	1 cut(s)	366
BtsCI	GGATG	1 cut(s)	164
CciI	TCATGA	1 cut(s)	180
CfoI	GCGC	1 cut(s)	482
Cfr13I	GGNCC	1 cut(s)	804
Cfr9I	CCCGGG	1 cut(s)	112
ClaI	ATCGAT	1 cut(s)	366
Csp6I	GTAC	4 cut(s)	496, 568, 586, 745
CviAII	CATG	5 cut(s)	70, 181, 462, 550, 601
CviJI	RGCY	8 cut(s)	178, 188, 647, 655, 674, 692, 733, 839
CviKI_1	RGCY	8 cut(s)	178, 188, 647, 655, 674, 692, 733, 839
CviQI	GTAC	4 cut(s)	496, 568, 586, 745
DpnI	GATC	3 cut(s)	22, 503, 666
DpnII	GATC	3 cut(s)	20, 501, 664
Eam1104I	CTCTTC	1 cut(s)	674
EarI	CTCTTC	1 cut(s)	674
Eco32I	GATATC	2 cut(s)	310, 450
Eco47I	GGWCC	1 cut(s)	804
Eco47III	AGCGCT	1 cut(s)	481
Eco57I	CTGAAG	2 cut(s)	280, 308
Eco88I	CYCGRG	2 cut(s)	112, 615
EcoRI	GAATTC	1 cut(s)	107
EcoRV	GATATC	2 cut(s)	310, 450
FaeI	CATG	5 cut(s)	73, 184, 465, 553, 604
FaqI	GGGAC	2 cut(s)	314, 790
FatI	CATG	5 cut(s)	69, 180, 461, 549, 600
FauNDI	CATATG	1 cut(s)	281
FbaI	TGATCA	1 cut(s)	501
Fnu4HI	GCNGC	2 cut(s)	530, 693
FokI	GGATG	1 cut(s)	151
Fsp4HI	GCNGC	2 cut(s)	530, 693
GlaI	GCGC	1 cut(s)	481
GluI	GCNGC	2 cut(s)	530, 693
GsaI	CCCAGC	1 cut(s)	678
HaeII	RGCGCY	1 cut(s)	483
HaeIII	GGCC	1 cut(s)	188
HapII	CCGG	4 cut(s)	113, 161, 454, 533
HhaI	GCGC	1 cut(s)	482
Hin1II	CATG	5 cut(s)	73, 184, 465, 553, 604
Hin6I	GCGC	1 cut(s)	480
HinP1I	GCGC	1 cut(s)	480
HincII	GTYRAC	1 cut(s)	459
HindII	GTYRAC	1 cut(s)	459
HindIII	AAGCTT	2 cut(s)	653, 731
HinfI	GANTC	6 cut(s)	16, 44, 73, 363, 508, 682
HpaII	CCGG	4 cut(s)	113, 161, 454, 533
HphI	GGTGA	1 cut(s)	478
Hpy166II	GTNNAC	6 cut(s)	142, 196, 459, 555, 586, 745
Hpy188I	TCNGA	8 cut(s)	49, 136, 235, 327, 406, 513, 700, 729
Hpy188III	TCNNGA	5 cut(s)	168, 181, 373, 505, 615
Hpy8I	GTNNAC	6 cut(s)	142, 196, 459, 555, 586, 745
HpyAV	CCTTC	2 cut(s)	178, 332
HpyCH4III	ACNGT	3 cut(s)	121, 317, 525
HpyCH4IV	ACGT	3 cut(s)	9, 192, 722
HpyCH4V	TGCA	2 cut(s)	760, 777
HpyF10VI	GCNNNNNNNGC	1 cut(s)	715
HpySE526I	ACGT	3 cut(s)	9, 192, 722
Hsp92II	CATG	5 cut(s)	73, 184, 465, 553, 604
HspAI	GCGC	1 cut(s)	480
KpnI	GGTACC	1 cut(s)	499
Ksp22I	TGATCA	1 cut(s)	501
Kzo9I	GATC	3 cut(s)	20, 501, 664
Lsp1109I	GCAGC	1 cut(s)	679
LweI	GCATC	1 cut(s)	173
MaeII	ACGT	3 cut(s)	9, 192, 722
MaeIII	GTNAC	4 cut(s)	77, 317, 345, 466
MalI	GATC	3 cut(s)	22, 503, 666
MboI	GATC	3 cut(s)	20, 501, 664
MboII	GAAGA	5 cut(s)	16, 393, 423, 691, 779
MhlI	GDGCHC	1 cut(s)	119
MluCI	AATT	3 cut(s)	37, 60, 107
MlyI	GAGTC	1 cut(s)	691
MmeI	TCCRAC	1 cut(s)	429
MnlI	CCTC	4 cut(s)	101, 611, 623, 829
MseI	TTAA	2 cut(s)	342, 540
MslI	CAYNNNNRTG	1 cut(s)	755
MspI	CCGG	4 cut(s)	113, 161, 454, 533
MspR9I	CCNGG	4 cut(s)	113, 114, 161, 454
MwoI	GCNNNNNNNGC	1 cut(s)	715
NciI	CCSGG	4 cut(s)	113, 114, 161, 454
NdeI	CATATG	1 cut(s)	281
NdeII	GATC	3 cut(s)	20, 501, 664
NlaIII	CATG	5 cut(s)	73, 184, 465, 553, 604
NlaIV	GGNNCC	2 cut(s)	497, 806
NmuCI	GTSAC	2 cut(s)	317, 466
PaeR7I	CTCGAG	1 cut(s)	615
PagI	TCATGA	1 cut(s)	180
PfeI	GAWTC	5 cut(s)	16, 44, 73, 363, 508
PkrI	GCNGC	2 cut(s)	531, 694
PleI	GAGTC	1 cut(s)	690
PpsI	GAGTC	1 cut(s)	690
Psp1406I	AACGTT	2 cut(s)	9, 722
PspFI	CCCAGC	1 cut(s)	674
PspN4I	GGNNCC	2 cut(s)	497, 806
PspPI	GGNCC	1 cut(s)	804
PstI	CTGCAG	1 cut(s)	779
RsaI	GTAC	4 cut(s)	497, 569, 587, 746
RsaNI	GTAC	4 cut(s)	496, 568, 586, 745
RseI	CAYNNNNRTG	1 cut(s)	755
SaqAI	TTAA	2 cut(s)	342, 540
SatI	GCNGC	2 cut(s)	530, 693
Sau3AI	GATC	3 cut(s)	20, 501, 664
Sau96I	GGNCC	1 cut(s)	804
SchI	GAGTC	1 cut(s)	691
ScrFI	CCNGG	4 cut(s)	113, 114, 161, 454
SduI	GDGCHC	1 cut(s)	119
SetI	ASST	9 cut(s)	12, 180, 195, 223, 324, 501, 657, 725, 735
SfaNI	GCATC	1 cut(s)	173
SfcI	CTRYAG	1 cut(s)	775
Sfr274I	CTCGAG	1 cut(s)	615
SinI	GGWCC	1 cut(s)	804
SlaI	CTCGAG	1 cut(s)	615
SmaI	CCCGGG	1 cut(s)	114
SmiMI	CAYNNNNRTG	1 cut(s)	755
SmlI	CTYRAG	2 cut(s)	350, 615
SmoI	CTYRAG	2 cut(s)	350, 615
Sse9I	AATT	3 cut(s)	37, 60, 107
SsiI	CCGC	1 cut(s)	530
StyD4I	CCNGG	4 cut(s)	111, 112, 159, 452
TaaI	ACNGT	3 cut(s)	121, 317, 525
TaiI	ACGT	3 cut(s)	12, 195, 725
TaqI	TCGA	6 cut(s)	19, 306, 312, 338, 366, 616
TasI	AATT	3 cut(s)	37, 60, 107
TatI	WGTACW	2 cut(s)	567, 744
TauI	GCSGC	1 cut(s)	532
TfiI	GAWTC	5 cut(s)	16, 44, 73, 363, 508
Tru1I	TTAA	2 cut(s)	342, 540
Tru9I	TTAA	2 cut(s)	342, 540
TseFI	GTSAC	2 cut(s)	317, 466
TseI	GCWGC	1 cut(s)	692
Tsp45I	GTSAC	2 cut(s)	317, 466
TspDTI	ATGAA	3 cut(s)	17, 197, 538
TspGWI	ACGGA	2 cut(s)	13, 258
TspMI	CCCGGG	1 cut(s)	112
VpaK11BI	GGWCC	1 cut(s)	804
XapI	RAATTY	1 cut(s)	107
XhoI	CTCGAG	1 cut(s)	615
XmaI	CCCGGG	1 cut(s)	112

Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.