Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1D

Orthogroup ID

OG0000221

Physical Location & Seq

Genomic Coordinates Forward (+)

12276709 .. 12277320

Gene Structure 612 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1DG069200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 612 bp

ATGTTCAACTTTGTTCTTACACTGCTTGCAAGAGATTCTGATGTTGTGATCCTTGATGATACGAAAGATGTATGGACAACTGACAACCAGGACAATGTAATAGAAATGCCAAGATACCATTTCTTTAGGTCTAACTGTCAAAAGTTTGTCCTCAGTAATGGTAAGCCTTATTCTGAGTTGAAGACCGATGAATGTGATCGGTTTGGAGGAGCTTATCTTGCAAACGTACTCCAACTTCTTAAGCATATTCACACCATATTCTTTAATGAAGTTGAGTTACAAGGGTGGGATCTTATCGACAGAGATGTGAGGCTCGTGTTGAAAATCCTAAAGAAGGAAGTCTTGAAGGGCTATAGAATTGTTTTCAGCCATGTCTTCCCCTCAAATGTCCAGGCTGATACTCATCCTTTGTGGAAGATGGTGGAGGAGTTAGGCGCTACTTGTTCAACACAAGTTGATCCATCAGTCACACATGTGGTTGCAGCGAATGCCCGAACACAGAAATCGTGTTGGGCAGTTAAAGAAGGAAAATTTTTGGTGAATCCCCAGTGGATTCATACTACAAATTTTATGTGGCAAAGGCAACCTGAAGATAATTTCCCCTGTCATTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000428 GO:0003674 GO:0003824 GO:0004721 GO:0004722 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0006355 GO:0006357 GO:0006464 GO:0006470 GO:0006793 GO:0006796 GO:0006807 GO:0006950 GO:0006970 GO:0008022 GO:0008150 GO:0008152 GO:0008420 GO:0009628 GO:0009651 GO:0009889 GO:0009987 GO:0010468 GO:0010556 GO:0016311 GO:0016591 GO:0016787 GO:0016788 GO:0016791 GO:0019219 GO:0019222 GO:0019538 GO:0030880 GO:0031323 GO:0031326 GO:0031974 GO:0031981 GO:0032991 GO:0036211 GO:0042578 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0043412 GO:0044237 GO:0044238 GO:0044260 GO:0044267 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044464 GO:0050789 GO:0050794 GO:0050896 GO:0051171 GO:0051252 GO:0055029 GO:0060255 GO:0061695 GO:0065007 GO:0070013 GO:0070940 GO:0071704 GO:0080090 GO:0140096 GO:1901564 GO:1902494 GO:1903506 GO:1990234 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

BRCT NIF PTCB-BRCT

Protein Analysis

203

Amino Acids

23.63

Weight (kDa)

6.23

Isoelectric Point (pI)

29.5

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
BRCT	PF00533	114 - 185	8e-09	BRCA1 C Terminus (BRCT) domain
PTCB-BRCT	PF12738	133 - 184	1.3e-07	twin BRCT domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0000221)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G58003 AT5G58003 AT5G58003
fragaria_vesca	FvH4_1g01060 FvH4_1g01060 FvH4_1g01060 FvH4_1g01060 FvH4_2g05941 FvH4_7g02340 FvH4_7g02631 FvH4_7g02801 FvH4_7g07841 FvH4_7g08260
malus_domestica	MD09G1131300.v1.1
prunus_persica	Prupe.7G261400_v2.0.a1 Prupe.7G261400_v2.0.a1 Prupe.7G261400_v2.0.a1 Prupe.7G261400_v2.0.a1 Prupe.7G261400_v2.0.a1 Prupe.7G261400_v2.0.a1
pyrus_communis	pycom09g05350
rosa_chinensis	RchiOBHm_Chr1g0324741 RchiOBHm_Chr2g0085821 RchiOBHm_Chr2g0147611 RchiOBHm_Chr4g0392421 RchiOBHm_Chr6g0254001 RchiOBHm_Chr6g0256111 RchiOBHm_Chr6g0256201 RchiOBHm_Chr6g0256301 RchiOBHm_Chr6g0257451 RchiOBHm_Chr6g0267911 RchiOBHm_Chr6g0276921 RchiOBHm_Chr7g0234511 RchiOBHm_Chr7g0234521 RchiOBHm_Chr7g0234531 RchiOBHm_Chr7g0234711 RchiOBHm_Chr7g0234721 RchiOBHm_Chr7g0234801 RchiOBHm_Chr7g0234841 RchiOBHm_Chr7g0234851
rosa_laevigata	RLG00000001210 RLG00000001218 RLG00000013348 RLG00000013351 RLG00000013354 RLG00000013969 RLG00000014699 RLG00000014794 RLG00000014949 RLG00000015721 RLG00000030176 RLG00000030180 RLG00000030183
rosa_multiflora	Rmu_sc0000434.1_g000006 Rmu_sc0001716.1_g000020 Rmu_sc0001800.1_g000011 Rmu_sc0001913.1_g000023 Rmu_sc0003301.1_g000015 Rmu_sc0003882.1_g000010 Rmu_sc0005080.1_g000013 Rmu_sc0006724.1_g000007 Rmu_sc0006759.1_g000001 Rmu_sc0006859.1_g000001 Rmu_sc0007217.1_g000009 Rmu_sc0010500.1_g000001 Rmu_sc0015353.1_g000005 Rmu_sc0017253.1_g000006 Rmu_sc0021133.1_g000001 Rmu_sc0033202.1_g000001
rosa_roxburghii	Rroxscaffold_2G00155020 Rroxscaffold_4G00325270 Rroxscaffold_7G00200340 Rroxscaffold_7G00211310
rosa_rugosa	Rorug01G0046400 Rorug01G0463600 Rorug05G0571900 Rorug05G0572300 Rorug06G0034600 Rorug07G0285100 Rorug07G0285400 Rorug07G0285500 Rorug07G0285600
rosa_samantha	Rh1AG063200 Rh1AG063800 Rh1DG069200 Rh1DG070400 Rh2AG012600 Rh2BG013300 Rh2DG015000 Rh4AG042600 Rh4BG037500 Rh4CG045400 Rh4CG045600 Rh6AG065400 Rh6AG082000 Rh6AG082100 Rh6AG089900 Rh6AG156900 Rh6AG157000 Rh6AG157200 Rh6AG214900 Rh6AG215000 Rh6AG215200 Rh6AG291000 Rh6BG058300 Rh6BG074200 Rh6BG074300 Rh6BG081300 Rh6BG158100 Rh6BG158400 Rh6BG158700 Rh6BG219800 Rh6CG058400 Rh6CG071100 Rh6CG078000 Rh6CG157400 Rh6CG158100 Rh6CG222400 Rh6DG055200 Rh6DG068500 Rh6DG073700 Rh6DG143300 Rh6DG143700 Rh6DG144100 Rh6DG212600 Rh7AG440200 Rh7AG440300 Rh7BG413100 Rh7CG461400 Rh7CG461500 Rh7CG461900 Rh7CG462000 Rh7DG429900
rosa_wichuraiana	Rw1G005350 Rw2G001120 Rw4G003330 Rw6G005760 Rw6G007140 Rw6G007840 Rw6G013630 Rw6G013660 Rw6G018800 Rw6G025060 Rw7G036540 Rw7G036580 Rw7G036600

Restriction Enzyme Sites

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Enzyme	Recognition Site	Cut Count	Positions (bp)
AclWI	GGATC	3 cut(s)	43, 297, 452
AcsI	RAATTY	2 cut(s)	530, 565
AcuI	CTGAAG	1 cut(s)	609
AfaI	GTAC	1 cut(s)	228
AfiI	CCNNNNNNNGG	1 cut(s)	334
AflII	CTTAAG	1 cut(s)	239
AflIII	ACRYGT	1 cut(s)	472
AgsI	TTSAA	5 cut(s)	7, 181, 322, 346, 447
AjnI	CCWGG	2 cut(s)	87, 390
AleI	CACNNNNGTG	1 cut(s)	473
AluBI	AGCT	1 cut(s)	212
AluI	AGCT	1 cut(s)	212
AlwI	GGATC	3 cut(s)	43, 297, 452
ApeKI	GCWGC	1 cut(s)	482
ApoI	RAATTY	2 cut(s)	530, 565
AspLEI	GCGC	1 cut(s)	437
AsuHPI	GGTGA	1 cut(s)	550
BarI	GAAGNNNNNNTAC	4 cut(s)	219, 251, 261, 293
BauI	CACGAG	1 cut(s)	314
BbsI	GAAGAC	2 cut(s)	188, 367
BbvI	GCAGC	1 cut(s)	494
BccI	CCATC	2 cut(s)	412, 469
BciT130I	CCWGG	2 cut(s)	89, 392
BfmI	CTRYAG	1 cut(s)	352
BfoI	RGCGCY	1 cut(s)	438
BfrI	CTTAAG	1 cut(s)	239
BisI	GCNGC	1 cut(s)	483
BlsI	GCNGC	1 cut(s)	484
Bme1390I	CCNGG	2 cut(s)	89, 392
BmrFI	CCNGG	2 cut(s)	89, 392
BmrI	ACTGGG	1 cut(s)	541
BmuI	ACTGGG	1 cut(s)	541
BpiI	GAAGAC	2 cut(s)	188, 367
BsaBI	GATNNNNATC	1 cut(s)	402
Bsc4I	CCNNNNNNNGG	1 cut(s)	334
Bse1I	ACTGG	1 cut(s)	547
Bse8I	GATNNNNATC	1 cut(s)	402
BseBI	CCWGG	2 cut(s)	89, 392
BseGI	GGATG	1 cut(s)	403
BseJI	GATNNNNATC	1 cut(s)	402
BseLI	CCNNNNNNNGG	1 cut(s)	334
BseMII	CTCAG	2 cut(s)	165, 166
BseNI	ACTGG	1 cut(s)	547
BseRI	GAGGAG	2 cut(s)	222, 440
BseXI	GCAGC	1 cut(s)	494
BslI	CCNNNNNNNGG	1 cut(s)	334
BsmI	GAATGC	1 cut(s)	493
Bsp143I	GATC	4 cut(s)	48, 196, 289, 457
BspCNI	CTCAG	2 cut(s)	165, 166
BspPI	GGATC	3 cut(s)	43, 297, 452
BspTI	CTTAAG	1 cut(s)	239
BsrI	ACTGG	1 cut(s)	547
BssMI	GATC	4 cut(s)	48, 196, 289, 457
BssSI	CACGAG	1 cut(s)	314
Bst2BI	CACGAG	1 cut(s)	314
Bst2UI	CCWGG	2 cut(s)	89, 392
Bst4CI	ACNGT	1 cut(s)	137
BstAFI	CTTAAG	1 cut(s)	239
BstAPI	GCANNNNNTGC	1 cut(s)	488
BstC8I	GCNNGC	1 cut(s)	27
BstDEI	CTNAG	2 cut(s)	152, 174
BstENI	CCTNNNNNAGG	1 cut(s)	332
BstF5I	GGATG	1 cut(s)	403
BstH2I	RGCGCY	1 cut(s)	438
BstHHI	GCGC	1 cut(s)	437
BstKTI	GATC	4 cut(s)	51, 199, 292, 460
BstMBI	GATC	4 cut(s)	48, 196, 289, 457
BstMWI	GCNNNNNNNGC	2 cut(s)	218, 488
BstNI	CCWGG	2 cut(s)	89, 392
BstNSI	RCATGY	1 cut(s)	476
BstSCI	CCNGG	2 cut(s)	87, 390
BstSFI	CTRYAG	1 cut(s)	352
BstV1I	GCAGC	1 cut(s)	494
BstV2I	GAAGAC	2 cut(s)	188, 367
BstX2I	RGATCY	1 cut(s)	289
BstYI	RGATCY	1 cut(s)	289
BtsCI	GGATG	1 cut(s)	403
BtsI	GCAGTG	1 cut(s)	20
BtsIMutI	CAGTG	2 cut(s)	20, 554
Cac8I	GCNNGC	1 cut(s)	27
CfoI	GCGC	1 cut(s)	437
Csp6I	GTAC	1 cut(s)	227
CviAII	CATG	2 cut(s)	371, 473
CviJI	RGCY	6 cut(s)	166, 212, 313, 351, 369, 395
CviKI_1	RGCY	6 cut(s)	166, 212, 313, 351, 369, 395
CviQI	GTAC	1 cut(s)	227
DdeI	CTNAG	2 cut(s)	152, 174
DpnI	GATC	4 cut(s)	50, 198, 291, 459
DpnII	GATC	4 cut(s)	48, 196, 289, 457
Eco57I	CTGAAG	1 cut(s)	609
EcoNI	CCTNNNNNAGG	1 cut(s)	332
EcoRII	CCWGG	2 cut(s)	87, 390
FaeI	CATG	2 cut(s)	374, 476
FaiI	YATR	8 cut(s)	73, 246, 257, 354, 372, 474, 558, 572
FalI	AAGNNNNNCTT	2 cut(s)	326, 358
FatI	CATG	2 cut(s)	370, 472
Fnu4HI	GCNGC	1 cut(s)	483
FokI	GGATG	1 cut(s)	390
Fsp4HI	GCNGC	1 cut(s)	483
GlaI	GCGC	1 cut(s)	436
GluI	GCNGC	1 cut(s)	483
HaeII	RGCGCY	1 cut(s)	438
HhaI	GCGC	1 cut(s)	437
Hin1II	CATG	2 cut(s)	374, 476
Hin6I	GCGC	1 cut(s)	435
HinP1I	GCGC	1 cut(s)	435
HinfI	GANTC	3 cut(s)	35, 541, 553
HphI	GGTGA	1 cut(s)	550
Hpy188I	TCNGA	2 cut(s)	40, 175
Hpy188III	TCNNGA	1 cut(s)	343
HpyAV	CCTTC	3 cut(s)	328, 340, 518
HpyCH4III	ACNGT	1 cut(s)	137
HpyCH4IV	ACGT	1 cut(s)	225
HpyCH4V	TGCA	3 cut(s)	29, 221, 482
HpyF10VI	GCNNNNNNNGC	2 cut(s)	218, 488
HpyF3I	CTNAG	2 cut(s)	152, 174
HpySE526I	ACGT	1 cut(s)	225
Hsp92II	CATG	2 cut(s)	374, 476
HspAI	GCGC	1 cut(s)	435
Kzo9I	GATC	4 cut(s)	48, 196, 289, 457
LmnI	GCTCC	1 cut(s)	209
LpnPI	CCDG	6 cut(s)	74, 101, 377, 404, 560, 600
Lsp1109I	GCAGC	1 cut(s)	494
MaeII	ACGT	1 cut(s)	225
MaeIII	GTNAC	2 cut(s)	276, 466
MalI	GATC	4 cut(s)	50, 198, 291, 459
MboI	GATC	4 cut(s)	48, 196, 289, 457
MboII	GAAGA	4 cut(s)	193, 367, 427, 602
MflI	RGATCY	1 cut(s)	289
MluCI	AATT	4 cut(s)	357, 530, 565, 595
MmeI	TCCRAC	1 cut(s)	256
MnlI	CCTC	5 cut(s)	161, 200, 303, 391, 418
MseI	TTAA	3 cut(s)	240, 264, 519
MslI	CAYNNNNRTG	1 cut(s)	473
MspCI	CTTAAG	1 cut(s)	239
MspR9I	CCNGG	2 cut(s)	89, 392
Mva1269I	GAATGC	1 cut(s)	493
MvaI	CCWGG	2 cut(s)	89, 392
MwoI	GCNNNNNNNGC	2 cut(s)	218, 488
NdeII	GATC	4 cut(s)	48, 196, 289, 457
NlaIII	CATG	2 cut(s)	374, 476
NmuCI	GTSAC	1 cut(s)	466
NspI	RCATGY	1 cut(s)	476
OliI	CACNNNNGTG	1 cut(s)	473
PciI	ACATGT	1 cut(s)	472
PctI	GAATGC	1 cut(s)	493
PfeI	GAWTC	3 cut(s)	35, 541, 553
PkrI	GCNGC	1 cut(s)	484
PscI	ACATGT	1 cut(s)	472
Psp6I	CCWGG	2 cut(s)	87, 390
PspGI	CCWGG	2 cut(s)	87, 390
PsuI	RGATCY	1 cut(s)	289
RsaI	GTAC	1 cut(s)	228
RsaNI	GTAC	1 cut(s)	227
RseI	CAYNNNNRTG	1 cut(s)	473
SaqAI	TTAA	3 cut(s)	240, 264, 519
SatI	GCNGC	1 cut(s)	483
Sau3AI	GATC	4 cut(s)	48, 196, 289, 457
ScrFI	CCNGG	2 cut(s)	89, 392
SetI	ASST	4 cut(s)	131, 214, 228, 589
SfcI	CTRYAG	1 cut(s)	352
SmiMI	CAYNNNNRTG	1 cut(s)	473
SmlI	CTYRAG	1 cut(s)	239
SmoI	CTYRAG	1 cut(s)	239
Sse9I	AATT	4 cut(s)	357, 530, 565, 595
StyD4I	CCNGG	2 cut(s)	87, 390
TaaI	ACNGT	1 cut(s)	137
TaiI	ACGT	1 cut(s)	228
TaqI	TCGA	1 cut(s)	297
TaqII	GACCGA	1 cut(s)	200
TasI	AATT	4 cut(s)	357, 530, 565, 595
TfiI	GAWTC	3 cut(s)	35, 541, 553
Tru1I	TTAA	3 cut(s)	240, 264, 519
Tru9I	TTAA	3 cut(s)	240, 264, 519
TscAI	CASTG	2 cut(s)	27, 554
TseFI	GTSAC	1 cut(s)	466
TseI	GCWGC	1 cut(s)	482
Tsp45I	GTSAC	1 cut(s)	466
TspDTI	ATGAA	3 cut(s)	204, 282, 545
TspRI	CASTG	2 cut(s)	27, 554
Vha464I	CTTAAG	1 cut(s)	239
XagI	CCTNNNNNAGG	1 cut(s)	332
XapI	RAATTY	2 cut(s)	530, 565
XceI	RCATGY	1 cut(s)	476

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