Basic Information

Type: gene

Biological Identity

Species

malus_domestica

Chromosome

Chr09

Orthogroup ID

OG0000757

Physical Location & Seq

Genomic Coordinates Reverse (-)

28318876 .. 28319694

Gene Structure 819 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

MD09G1229300.v1.1.491

Sequence Viewer

CDS Protein Promoter (2k)

Length: 819 bp

ATGAAGAGCGTAGCGATTCGACGGGTTTGGCAGCACAACGCAGCATTCGAGTTTCATCTGATTACGGCCTTGATTCGTCACTACACCTTCGTCTCTCTAGACACCGAATTTCCGGGGACAGTTTTCCAAATTCCTGCACAGACGCCTGCATCCAAATACCACCTCATGAGGGAAAACGTGAACGCCACCAAGATAATCCAATTAGGTCTAACACTCTCCGACCGCCATGGAAACCTGCCGGACTTGGGCACTGATACCTGCTACATTTGGGAGTTCAACTTCAGGGACTTTGATATCGATCGCGACTGTCAAAACAAGGACTCAATCGAGTTACTTAAGAGGCAAGGAATCGATTTCTTGGAGAACAAGCAAAATGGTATTAGCGCTTCCCACTTCTCTTCTCTGTTGAGGAATTCCGGTCTGATCTCCAGGGAATCCAACTTGACATGGGTGACATTCCACAGTGCTTATGATTTCGGGTTCTTGATCAAGATTCTAAACGAGGTGTTGCCGCACGACATTACGAGGTTCATGTGGATGATGGATTTGTACTTTGGACAAAGAGTGTATGACATCAAATACATGATTAGGTTTTGCCAAGGGCTTCATGGAGGTCTCGAGAAAGTGGCGAATGCACTCAATGTCGATCGTGTGGCCGGAAAGAGTCACCAGGCTGGCTCCGATAGTCTGCTGACTTTGCAAACGTTTATGAAGCTCAAGGATGTGTATTTCAAAACTAGCTTATTGGAACAAAACTGCAACTCAAACTTTTATTGCTGTCAAGGAGTTTTGTATGGCTTGGAAGTTGAGGATCGTTGA

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

273

Amino Acids

31.45

Weight (kDa)

6.55

Isoelectric Point (pI)

27.14

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
CAF1	PF04857	9 - 128	2.3e-11	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)
Acc36I	ACCTGC	2 cut(s)	243, 266
AccII	CGCG	1 cut(s)	303
AciI	CCGC	2 cut(s)	223, 512
AclI	AACGTT	1 cut(s)	704
AcoI	YGGCCR	1 cut(s)	654
AcsI	RAATTY	3 cut(s)	107, 129, 412
AcuI	CTGAAG	1 cut(s)	265
AcyI	GRCGYC	1 cut(s)	143
AfaI	GTAC	1 cut(s)	551
AfeI	AGCGCT	1 cut(s)	385
AfiI	CCNNNNNNNGG	2 cut(s)	169, 245
AflII	CTTAAG	1 cut(s)	335
AgsI	TTSAA	2 cut(s)	277, 733
AjnI	CCWGG	2 cut(s)	428, 669
AluBI	AGCT	2 cut(s)	715, 741
AluI	AGCT	2 cut(s)	715, 741
Alw26I	GTCTC	2 cut(s)	97, 620
Ama87I	CYCGRG	1 cut(s)	617
Aor51HI	AGCGCT	1 cut(s)	385
AoxI	GGCC	2 cut(s)	66, 654
ApeKI	GCWGC	2 cut(s)	31, 41
ApoI	RAATTY	3 cut(s)	107, 129, 412
AspLEI	GCGC	1 cut(s)	386
AsuC2I	CCSGG	1 cut(s)	114
AsuHPI	GGTGA	2 cut(s)	463, 659
AvaI	CYCGRG	1 cut(s)	617
BaeGI	GKGCMC	1 cut(s)	251
BarI	GAAGNNNNNNTAC	2 cut(s)	370, 402
BbvI	GCAGC	2 cut(s)	43, 53
BccI	CCATC	1 cut(s)	535
BceAI	ACGGC	1 cut(s)	81
BciT130I	CCWGG	2 cut(s)	430, 671
BclI	TGATCA	1 cut(s)	486
BcnI	CCSGG	1 cut(s)	114
BcoDI	GTCTC	2 cut(s)	97, 620
BfaI	CTAG	2 cut(s)	98, 738
BfoI	RGCGCY	1 cut(s)	387
BfrI	CTTAAG	1 cut(s)	335
BfuAI	ACCTGC	2 cut(s)	243, 266
BisI	GCNGC	3 cut(s)	32, 42, 512
BlsI	GCNGC	3 cut(s)	33, 43, 513
Bme1390I	CCNGG	3 cut(s)	114, 430, 671
BmeT110I	CYCGRG	1 cut(s)	617
BmiI	GGNNCC	1 cut(s)	679
BmrFI	CCNGG	3 cut(s)	114, 430, 671
BmsI	GCATC	1 cut(s)	158
BpmI	CTGGAG	1 cut(s)	412
BpuEI	CTTGAG	1 cut(s)	701
BpuMI	CCSGG	1 cut(s)	114
Bsa29I	ATCGAT	2 cut(s)	297, 351
BsaBI	GATNNNNATC	1 cut(s)	297
BsaHI	GRCGYC	1 cut(s)	143
BsaI	GGTCTC	1 cut(s)	620
BsaJI	CCNNGG	4 cut(s)	113, 226, 429, 598
BsaWI	WCCGGW	1 cut(s)	416
Bsc4I	CCNNNNNNNGG	2 cut(s)	169, 245
Bse8I	GATNNNNATC	1 cut(s)	297
BseBI	CCWGG	2 cut(s)	430, 671
BseCI	ATCGAT	2 cut(s)	297, 351
BseDI	CCNNGG	4 cut(s)	113, 226, 429, 598
BseGI	GGATG	3 cut(s)	149, 543, 727
BseJI	GATNNNNATC	1 cut(s)	297
BseLI	CCNNNNNNNGG	2 cut(s)	169, 245
BseSI	GKGCMC	1 cut(s)	251
BseXI	GCAGC	2 cut(s)	43, 53
BsgI	GTGCAG	1 cut(s)	120
Bsh1236I	CGCG	1 cut(s)	303
Bsh1285I	CGRYCG	3 cut(s)	223, 301, 649
BshFI	GGCC	2 cut(s)	68, 656
BshVI	ATCGAT	2 cut(s)	297, 351
BsiEI	CGRYCG	3 cut(s)	223, 301, 649
BsiHKCI	CYCGRG	1 cut(s)	617
BsiSI	CCGG	4 cut(s)	113, 239, 417, 657
BslFI	GGGAC	2 cut(s)	130, 299
BslI	CCNNNNNNNGG	2 cut(s)	169, 245
BsmAI	GTCTC	2 cut(s)	97, 620
BsmBI	CGTCTC	1 cut(s)	97
BsmFI	GGGAC	2 cut(s)	130, 299
BsmI	GAATGC	2 cut(s)	44, 637
BsnI	GGCC	2 cut(s)	68, 656
Bso31I	GGTCTC	1 cut(s)	620
BsoBI	CYCGRG	1 cut(s)	617
Bsp1286I	GDGCHC	1 cut(s)	251
Bsp143I	GATC	5 cut(s)	298, 423, 486, 646, 811
Bsp19I	CCATGG	1 cut(s)	226
Bsp68I	TCGCGA	1 cut(s)	303
BspACI	CCGC	2 cut(s)	223, 512
BspANI	GGCC	2 cut(s)	68, 656
BspDI	ATCGAT	2 cut(s)	297, 351
BspFNI	CGCG	1 cut(s)	303
BspHI	TCATGA	1 cut(s)	165
BspLI	GGNNCC	1 cut(s)	679
BspMI	ACCTGC	2 cut(s)	243, 266
BspTI	CTTAAG	1 cut(s)	335
BspTNI	GGTCTC	1 cut(s)	620
BssECI	CCNNGG	4 cut(s)	113, 226, 429, 598
BssMI	GATC	5 cut(s)	298, 423, 486, 646, 811
BssNI	GRCGYC	1 cut(s)	143
BssT1I	CCWWGG	2 cut(s)	226, 598
Bst2UI	CCWGG	2 cut(s)	430, 671
Bst4CI	ACNGT	3 cut(s)	121, 308, 464
Bst6I	CTCTTC	1 cut(s)	403
BstACI	GRCGYC	1 cut(s)	143
BstAFI	CTTAAG	1 cut(s)	335
BstC8I	GCNNGC	2 cut(s)	147, 676
BstDSI	CCRYGG	1 cut(s)	226
BstF5I	GGATG	3 cut(s)	149, 543, 727
BstFNI	CGCG	1 cut(s)	303
BstH2I	RGCGCY	1 cut(s)	387
BstHHI	GCGC	1 cut(s)	386
BstKTI	GATC	5 cut(s)	301, 426, 489, 649, 814
BstMAI	GTCTC	2 cut(s)	97, 620
BstMBI	GATC	5 cut(s)	298, 423, 486, 646, 811
BstMCI	CGRYCG	3 cut(s)	223, 301, 649
BstMWI	GCNNNNNNNGC	1 cut(s)	697
BstNI	CCWGG	2 cut(s)	430, 671
BstSCI	CCNGG	3 cut(s)	112, 428, 669
BstSLI	GKGCMC	1 cut(s)	251
BstUI	CGCG	1 cut(s)	303
BstV1I	GCAGC	2 cut(s)	43, 53
Bsu15I	ATCGAT	2 cut(s)	297, 351
BsuRI	GGCC	2 cut(s)	68, 656
BsuTUI	ATCGAT	2 cut(s)	297, 351
BtgI	CCRYGG	1 cut(s)	226
BtsCI	GGATG	3 cut(s)	149, 543, 727
BtsIMutI	CAGTG	2 cut(s)	249, 469
BtuMI	TCGCGA	1 cut(s)	303
BveI	ACCTGC	2 cut(s)	243, 266
Cac8I	GCNNGC	2 cut(s)	147, 676
CciI	TCATGA	1 cut(s)	165
CfoI	GCGC	1 cut(s)	386
ClaI	ATCGAT	2 cut(s)	297, 351
CseI	GACGC	1 cut(s)	151
Csp6I	GTAC	1 cut(s)	550
CviAII	CATG	6 cut(s)	166, 227, 447, 532, 583, 608
CviJI	RGCY	8 cut(s)	68, 604, 656, 674, 678, 715, 741, 798
CviKI_1	RGCY	8 cut(s)	68, 604, 656, 674, 678, 715, 741, 798
CviQI	GTAC	1 cut(s)	550
DpnI	GATC	5 cut(s)	300, 425, 488, 648, 813
DpnII	GATC	5 cut(s)	298, 423, 486, 646, 811
EaeI	YGGCCR	1 cut(s)	654
Eam1104I	CTCTTC	1 cut(s)	403
EarI	CTCTTC	1 cut(s)	403
Eco130I	CCWWGG	2 cut(s)	226, 598
Eco31I	GGTCTC	1 cut(s)	620
Eco32I	GATATC	1 cut(s)	295
Eco47III	AGCGCT	1 cut(s)	385
Eco57I	CTGAAG	1 cut(s)	265
Eco88I	CYCGRG	1 cut(s)	617
EcoRI	GAATTC	1 cut(s)	412
EcoRII	CCWGG	2 cut(s)	428, 669
EcoRV	GATATC	1 cut(s)	295
EcoT14I	CCWWGG	2 cut(s)	226, 598
ErhI	CCWWGG	2 cut(s)	226, 598
Esp3I	CGTCTC	1 cut(s)	97
FaeI	CATG	6 cut(s)	169, 230, 450, 535, 586, 611
FaqI	GGGAC	2 cut(s)	130, 299
FatI	CATG	6 cut(s)	165, 226, 446, 531, 582, 607
FbaI	TGATCA	1 cut(s)	486
Fnu4HI	GCNGC	3 cut(s)	32, 42, 512
FokI	GGATG	3 cut(s)	136, 550, 734
Fsp4HI	GCNGC	3 cut(s)	32, 42, 512
FspBI	CTAG	2 cut(s)	98, 738
GlaI	GCGC	1 cut(s)	385
GluI	GCNGC	3 cut(s)	32, 42, 512
GsuI	CTGGAG	1 cut(s)	412
HaeII	RGCGCY	1 cut(s)	387
HaeIII	GGCC	2 cut(s)	68, 656
HapII	CCGG	4 cut(s)	113, 239, 417, 657
HgaI	GACGC	1 cut(s)	151
HhaI	GCGC	1 cut(s)	386
Hin1I	GRCGYC	1 cut(s)	143
Hin1II	CATG	6 cut(s)	169, 230, 450, 535, 586, 611
Hin6I	GCGC	1 cut(s)	384
HinP1I	GCGC	1 cut(s)	384
HinfI	GANTC	7 cut(s)	16, 73, 320, 348, 434, 493, 664
HpaII	CCGG	4 cut(s)	113, 239, 417, 657
HphI	GGTGA	2 cut(s)	463, 659
Hpy166II	GTNNAC	1 cut(s)	181
Hpy188I	TCNGA	4 cut(s)	60, 220, 423, 682
Hpy188III	TCNNGA	7 cut(s)	98, 166, 302, 484, 490, 617, 619
Hpy8I	GTNNAC	1 cut(s)	181
Hpy99I	CGWCG	1 cut(s)	24
HpyAV	CCTTC	1 cut(s)	97
HpyCH4III	ACNGT	3 cut(s)	121, 308, 464
HpyCH4IV	ACGT	2 cut(s)	177, 704
HpyCH4V	TGCA	5 cut(s)	137, 149, 635, 700, 759
HpyF10VI	GCNNNNNNNGC	1 cut(s)	697
HpySE526I	ACGT	2 cut(s)	177, 704
Hsp92I	GRCGYC	1 cut(s)	143
Hsp92II	CATG	6 cut(s)	169, 230, 450, 535, 586, 611
HspAI	GCGC	1 cut(s)	384
Ksp22I	TGATCA	1 cut(s)	486
Kzo9I	GATC	5 cut(s)	298, 423, 486, 646, 811
LmnI	GCTCC	1 cut(s)	683
Lsp1109I	GCAGC	2 cut(s)	43, 53
LweI	GCATC	1 cut(s)	158
MaeI	CTAG	2 cut(s)	98, 738
MaeII	ACGT	2 cut(s)	177, 704
MaeIII	GTNAC	4 cut(s)	77, 330, 451, 665
MalI	GATC	5 cut(s)	300, 425, 488, 648, 813
MboI	GATC	5 cut(s)	298, 423, 486, 646, 811
MboII	GAAGA	2 cut(s)	16, 390
MhlI	GDGCHC	1 cut(s)	251
MluCI	AATT	4 cut(s)	107, 129, 200, 412
MlyI	GAGTC	2 cut(s)	314, 673
MmeI	TCCRAC	2 cut(s)	243, 462
MnlI	CCTC	8 cut(s)	162, 173, 333, 402, 496, 519, 605, 802
MseI	TTAA	1 cut(s)	336
MslI	CAYNNNNRTG	1 cut(s)	536
MspCI	CTTAAG	1 cut(s)	335
MspI	CCGG	4 cut(s)	113, 239, 417, 657
MspR9I	CCNGG	3 cut(s)	114, 430, 671
Mva1269I	GAATGC	2 cut(s)	44, 637
MvaI	CCWGG	2 cut(s)	430, 671
MvnI	CGCG	1 cut(s)	303
MwoI	GCNNNNNNNGC	1 cut(s)	697
NciI	CCSGG	1 cut(s)	114
NcoI	CCATGG	1 cut(s)	226
NdeII	GATC	5 cut(s)	298, 423, 486, 646, 811
NlaIII	CATG	6 cut(s)	169, 230, 450, 535, 586, 611
NlaIV	GGNNCC	1 cut(s)	679
NmuCI	GTSAC	3 cut(s)	77, 451, 665
NruI	TCGCGA	1 cut(s)	303
PaeR7I	CTCGAG	1 cut(s)	617
PagI	TCATGA	1 cut(s)	165
PcsI	WCGNNNNNNNCGW	1 cut(s)	45
PctI	GAATGC	2 cut(s)	44, 637
PfeI	GAWTC	5 cut(s)	16, 73, 348, 434, 493
PkrI	GCNGC	3 cut(s)	33, 43, 513
Ple19I	CGATCG	2 cut(s)	301, 649
PleI	GAGTC	2 cut(s)	314, 672
PpsI	GAGTC	2 cut(s)	314, 672
Psp1406I	AACGTT	1 cut(s)	704
Psp6I	CCWGG	2 cut(s)	428, 669
PspGI	CCWGG	2 cut(s)	428, 669
PspN4I	GGNNCC	1 cut(s)	679
PvuI	CGATCG	2 cut(s)	301, 649
RruI	TCGCGA	1 cut(s)	303
RsaI	GTAC	1 cut(s)	551
RsaNI	GTAC	1 cut(s)	550
RseI	CAYNNNNRTG	1 cut(s)	536
SaqAI	TTAA	1 cut(s)	336
SatI	GCNGC	3 cut(s)	32, 42, 512
Sau3AI	GATC	5 cut(s)	298, 423, 486, 646, 811
SchI	GAGTC	2 cut(s)	314, 673
ScrFI	CCNGG	3 cut(s)	114, 430, 671
SduI	GDGCHC	1 cut(s)	251
SfaNI	GCATC	1 cut(s)	158
Sfr274I	CTCGAG	1 cut(s)	617
SlaI	CTCGAG	1 cut(s)	617
SmiMI	CAYNNNNRTG	1 cut(s)	536
SmlI	CTYRAG	3 cut(s)	335, 617, 716
SmoI	CTYRAG	3 cut(s)	335, 617, 716
Sse9I	AATT	4 cut(s)	107, 129, 200, 412
SsiI	CCGC	2 cut(s)	223, 512
SspMI	CTAG	2 cut(s)	98, 738
StyD4I	CCNGG	3 cut(s)	112, 428, 669
StyI	CCWWGG	2 cut(s)	226, 598
TaaI	ACNGT	3 cut(s)	121, 308, 464
TaiI	ACGT	2 cut(s)	180, 707
TaqI	TCGA	7 cut(s)	19, 48, 297, 327, 351, 618, 645
TasI	AATT	4 cut(s)	107, 129, 200, 412
TatI	WGTACW	1 cut(s)	549
TauI	GCSGC	1 cut(s)	514
TfiI	GAWTC	5 cut(s)	16, 73, 348, 434, 493
Tru1I	TTAA	1 cut(s)	336
Tru9I	TTAA	1 cut(s)	336
TscAI	CASTG	2 cut(s)	256, 469
TseFI	GTSAC	3 cut(s)	77, 451, 665
TseI	GCWGC	2 cut(s)	31, 41
Tsp45I	GTSAC	3 cut(s)	77, 451, 665
TspDTI	ATGAA	5 cut(s)	17, 44, 520, 596, 725
TspRI	CASTG	2 cut(s)	256, 469
Vha464I	CTTAAG	1 cut(s)	335
XapI	RAATTY	3 cut(s)	107, 129, 412
XbaI	TCTAGA	1 cut(s)	97
XcmI	CCANNNNNNNNNTGG	1 cut(s)	605
XhoI	CTCGAG	1 cut(s)	617
XspI	CTAG	2 cut(s)	98, 738

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