Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4C

Orthogroup ID

OG0000759

Physical Location & Seq

Genomic Coordinates Reverse (-)

8247362 .. 8248244

Gene Structure 883 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4CG040700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 732 bp

ATGTCTATGATCAAGCAAGATGACTCGGATGAACCCGAAACGTTTGCCGGGTCTAAGCGTAAGAGCTTAGAAAACGGTGACGGTTCGATCAAAAGGGCAAAACCCATTTCGACCCATCATATCAAGCAAGAAGAAGAAGTCTGTGAGGCCGAAACCGGTCTTGGGTCTAACCCCAGAATCAGAGTAAAGCAGGAAATTCCCTATCCCCCGCAGGGTTTGATCCACCAGCAAGAGAATGTGATGAAAATCCGATCAGTAATCGGGTCGGAAATACGAGAAAATCAGGCGAATACAATCACAGGGGCTCGGGTTTCGAGGTCTGAGGAGACCAAAGCTAAGAGGGTGAAGAAGGAAGTTGCTGACTGTGAATTGATGTCGGTGCAACATGAAAGACCTCAGAATTTGGAGGATGGCGATTTCAATATTGAGCCGGATTGGTTCTTGGTGGGAAGCACATTCGTCACTGCTGTTTCGACTAGTAAAGGCATGAAATTATTGGACAATGAGATTGTTCATCTCTCTTTTCCTTCCTTAAATTCCAGCTACAAAACCCAATGGATTGTTCGTTTTTCGACGAAAAGATCAGGAGAGACCATTGGTCGGTTTCCAATGGAATGGGCAAAATCTGTTGTTCCTCTTGTGAATTCTAATAAGGTTAAAGTTCTTGGGCGTTTTATGGGTGCGCCGAAATTCCTATCTATGATGCAAGAGATCATATTGTCTGTAAGGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0009507 GO:0009526 GO:0009536 GO:0009941 GO:0031967 GO:0031975 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044422 GO:0044424 GO:0044434 GO:0044435 GO:0044444 GO:0044446 GO:0044464

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

HIRAN Helicase_C SNF2_N zf-C3HC4 zf-C3HC4_3

Protein Analysis

243

Amino Acids

27.39

Weight (kDa)

8.78

Isoelectric Point (pI)

51.0

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
HIRAN	PF08797	149 - 242	2.9e-12	HIRAN domain

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

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Publication-ready

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Orthologous Genes (Group: OG0000759)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G43530
fragaria_vesca	FvH4_4g03130 FvH4_4g03131 FvH4_4g03132 FvH4_4g03180 FvH4_4g03180 FvH4_4g03180
malus_domestica	MD16G1213200.v1.1
prunus_persica	Prupe.1G034800_v2.0.a1
pyrus_communis	pycom16g17900 pycom16g17910
rosa_chinensis	RchiOBHm_Chr4g0391421 RchiOBHm_Chr4g0391471 RchiOBHm_Chr4g0391481 RchiOBHm_Chr4g0391501 RchiOBHm_Chr4g0391631 RchiOBHm_Chr4g0391741 RchiOBHm_Chr4g0391801
rosa_laevigata	RLG00000009859 RLG00000009860 RLG00000009864 RLG00000009865 RLG00000009866 RLG00000028882 RLG00000034555
rosa_multiflora	Rmu_sc0000383.1_g000032 Rmu_sc0001174.1_g000001 Rmu_sc0001174.1_g000027 Rmu_sc0001174.1_g000030 Rmu_sc0004862.1_g000001 Rmu_sc0004862.1_g000022 Rmu_sc0007466.1_g000001 Rmu_sc0021280.1_g000001 Rmu_sc0023741.1_g000005
rosa_roxburghii	Rroxscaffold_5G00337130 Rroxscaffold_5G00337140 Rroxscaffold_5G00337170 Rroxscaffold_7G00197540
rosa_rugosa	Rorug03G0335900 Rorug03G0336000 Rorug03G0336100 Rorug03G0336400
rosa_samantha	Rh4AG037500 Rh4AG037600 Rh4AG037700 Rh4AG038300 Rh4AG038400 Rh4AG038500 Rh4AG038800 Rh4BG031800 Rh4BG032300 Rh4BG032500 Rh4BG032600 Rh4BG033000 Rh4BG137700 Rh4CG040500 Rh4CG040700 Rh4CG040800 Rh4CG041400 Rh4CG269500 Rh4DG035000 Rh4DG035100 Rh4DG035200 Rh4DG036200 Rh6DG188300
rosa_wichuraiana	Rw4G002920 Rw4G002930 Rw4G002970 Rw4G003010 Rw5G048340

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	1 cut(s)	209
AclI	AACGTT	1 cut(s)	41
AclWI	GGATC	1 cut(s)	214
AcsI	RAATTY	5 cut(s)	195, 400, 535, 643, 689
AfiI	CCNNNNNNNGG	3 cut(s)	162, 212, 600
AgeI	ACCGGT	1 cut(s)	155
AgsI	TTSAA	1 cut(s)	421
AhdI	GACNNNNNGTC	1 cut(s)	597
AhlI	ACTAGT	1 cut(s)	476
AjuI	GAANNNNNNNTTGG	4 cut(s)	144, 176, 546, 578
AluBI	AGCT	3 cut(s)	66, 335, 543
AluI	AGCT	3 cut(s)	66, 335, 543
Alw26I	GTCTC	2 cut(s)	320, 584
AlwI	GGATC	1 cut(s)	214
Ama87I	CYCGRG	1 cut(s)	306
AoxI	GGCC	1 cut(s)	147
ApoI	RAATTY	5 cut(s)	195, 400, 535, 643, 689
AsiGI	ACCGGT	1 cut(s)	155
AspLEI	GCGC	1 cut(s)	685
AsuC2I	CCSGG	1 cut(s)	49
AsuHPI	GGTGA	2 cut(s)	89, 355
AvaI	CYCGRG	1 cut(s)	306
BanII	GRGCYC	1 cut(s)	307
BccI	CCATC	2 cut(s)	123, 404
BcgI	CGANNNNNNTGC	2 cut(s)	26, 60
BclI	TGATCA	1 cut(s)	9
BcnI	CCSGG	1 cut(s)	49
BcoDI	GTCTC	2 cut(s)	320, 584
BcuI	ACTAGT	1 cut(s)	476
BfaI	CTAG	1 cut(s)	477
Bme1390I	CCNGG	1 cut(s)	49
BmeRI	GACNNNNNGTC	1 cut(s)	597
BmeT110I	CYCGRG	1 cut(s)	306
BmrFI	CCNGG	1 cut(s)	49
BmsI	GCATC	1 cut(s)	693
BpuMI	CCSGG	1 cut(s)	49
BsaBI	GATNNNNATC	1 cut(s)	245
BsaI	GGTCTC	2 cut(s)	320, 584
BsaWI	WCCGGW	1 cut(s)	155
Bsc4I	CCNNNNNNNGG	3 cut(s)	162, 212, 600
Bse118I	RCCGGY	1 cut(s)	155
Bse8I	GATNNNNATC	1 cut(s)	245
BseGI	GGATG	2 cut(s)	34, 415
BseJI	GATNNNNATC	1 cut(s)	245
BseLI	CCNNNNNNNGG	3 cut(s)	162, 212, 600
BseMII	CTCAG	2 cut(s)	312, 410
BseRI	GAGGAG	1 cut(s)	338
BshFI	GGCC	1 cut(s)	149
BshTI	ACCGGT	1 cut(s)	155
BsiHKCI	CYCGRG	1 cut(s)	306
BsiSI	CCGG	3 cut(s)	48, 156, 431
BslI	CCNNNNNNNGG	3 cut(s)	162, 212, 600
BsmAI	GTCTC	2 cut(s)	320, 584
BsnI	GGCC	1 cut(s)	149
Bso31I	GGTCTC	2 cut(s)	320, 584
BsoBI	CYCGRG	1 cut(s)	306
Bsp1286I	GDGCHC	1 cut(s)	307
Bsp143I	GATC	6 cut(s)	9, 87, 219, 251, 581, 711
BspACI	CCGC	1 cut(s)	209
BspANI	GGCC	1 cut(s)	149
BspCNI	CTCAG	2 cut(s)	313, 409
BspPI	GGATC	1 cut(s)	214
BspTNI	GGTCTC	2 cut(s)	320, 584
BsrFI	RCCGGY	1 cut(s)	155
BssAI	RCCGGY	1 cut(s)	155
BssMI	GATC	6 cut(s)	9, 87, 219, 251, 581, 711
Bst4CI	ACNGT	3 cut(s)	77, 83, 365
BstDEI	CTNAG	5 cut(s)	54, 67, 321, 336, 396
BstF5I	GGATG	2 cut(s)	34, 415
BstHHI	GCGC	1 cut(s)	685
BstKTI	GATC	6 cut(s)	12, 90, 222, 254, 584, 714
BstMAI	GTCTC	2 cut(s)	320, 584
BstMBI	GATC	6 cut(s)	9, 87, 219, 251, 581, 711
BstSCI	CCNGG	1 cut(s)	47
BstXI	CCANNNNNNTGG	1 cut(s)	615
BsuRI	GGCC	1 cut(s)	149
BtsCI	GGATG	2 cut(s)	34, 415
BtsI	GCAGTG	1 cut(s)	462
BtsIMutI	CAGTG	1 cut(s)	462
CfoI	GCGC	1 cut(s)	685
Cfr10I	RCCGGY	1 cut(s)	155
CspAI	ACCGGT	1 cut(s)	155
CviAII	CATG	2 cut(s)	386, 487
CviJI	RGCY	6 cut(s)	66, 149, 305, 335, 430, 543
CviKI_1	RGCY	6 cut(s)	66, 149, 305, 335, 430, 543
DdeI	CTNAG	5 cut(s)	54, 67, 321, 336, 396
DpnI	GATC	6 cut(s)	11, 89, 221, 253, 583, 713
DpnII	GATC	6 cut(s)	9, 87, 219, 251, 581, 711
DriI	GACNNNNNGTC	1 cut(s)	597
Eam1105I	GACNNNNNGTC	1 cut(s)	597
Eco24I	GRGCYC	1 cut(s)	307
Eco31I	GGTCTC	2 cut(s)	320, 584
Eco88I	CYCGRG	1 cut(s)	306
EcoRI	GAATTC	1 cut(s)	643
EcoT38I	GRGCYC	1 cut(s)	307
FaeI	CATG	2 cut(s)	389, 490
FaiI	YATR	7 cut(s)	8, 120, 387, 488, 677, 701, 716
FatI	CATG	2 cut(s)	385, 486
FauI	CCCGC	1 cut(s)	216
FbaI	TGATCA	1 cut(s)	9
FokI	GGATG	2 cut(s)	41, 422
FriOI	GRGCYC	1 cut(s)	307
FspBI	CTAG	1 cut(s)	477
GlaI	GCGC	1 cut(s)	684
HaeIII	GGCC	1 cut(s)	149
HapII	CCGG	3 cut(s)	48, 156, 431
HhaI	GCGC	1 cut(s)	685
Hin1II	CATG	2 cut(s)	389, 490
Hin6I	GCGC	1 cut(s)	683
HinP1I	GCGC	1 cut(s)	683
HinfI	GANTC	2 cut(s)	23, 177
HpaII	CCGG	3 cut(s)	48, 156, 431
HphI	GGTGA	2 cut(s)	89, 355
Hpy188I	TCNGA	6 cut(s)	28, 182, 251, 268, 322, 399
Hpy188III	TCNNGA	1 cut(s)	585
Hpy99I	CGWCG	1 cut(s)	577
HpyAV	CCTTC	2 cut(s)	343, 537
HpyCH4III	ACNGT	3 cut(s)	77, 83, 365
HpyCH4IV	ACGT	1 cut(s)	41
HpyCH4V	TGCA	2 cut(s)	382, 706
HpyF3I	CTNAG	5 cut(s)	54, 67, 321, 336, 396
HpySE526I	ACGT	1 cut(s)	41
Hsp92II	CATG	2 cut(s)	389, 490
HspAI	GCGC	1 cut(s)	683
Ksp22I	TGATCA	1 cut(s)	9
Kzo9I	GATC	6 cut(s)	9, 87, 219, 251, 581, 711
LweI	GCATC	1 cut(s)	693
MaeI	CTAG	1 cut(s)	477
MaeII	ACGT	1 cut(s)	41
MaeIII	GTNAC	2 cut(s)	77, 460
MalI	GATC	6 cut(s)	11, 89, 221, 253, 583, 713
MboI	GATC	6 cut(s)	9, 87, 219, 251, 581, 711
MboII	GAAGA	3 cut(s)	143, 146, 358
MhlI	GDGCHC	1 cut(s)	307
MluCI	AATT	7 cut(s)	195, 368, 400, 491, 535, 643, 689
MlyI	GAGTC	1 cut(s)	17
MmeI	TCCRAC	1 cut(s)	246
MnlI	CCTC	7 cut(s)	139, 309, 316, 333, 400, 405, 645
MseI	TTAA	2 cut(s)	533, 657
MspI	CCGG	3 cut(s)	48, 156, 431
MspR9I	CCNGG	1 cut(s)	49
NciI	CCSGG	1 cut(s)	49
NdeII	GATC	6 cut(s)	9, 87, 219, 251, 581, 711
NlaIII	CATG	2 cut(s)	389, 490
NmuCI	GTSAC	2 cut(s)	77, 460
PfeI	GAWTC	1 cut(s)	177
PinAI	ACCGGT	1 cut(s)	155
PleI	GAGTC	1 cut(s)	17
PpsI	GAGTC	1 cut(s)	17
Psp1406I	AACGTT	1 cut(s)	41
SaqAI	TTAA	2 cut(s)	533, 657
Sau3AI	GATC	6 cut(s)	9, 87, 219, 251, 581, 711
SchI	GAGTC	1 cut(s)	17
ScrFI	CCNGG	1 cut(s)	49
SduI	GDGCHC	1 cut(s)	307
SetI	ASST	8 cut(s)	44, 68, 320, 337, 397, 545, 657, 731
SfaNI	GCATC	1 cut(s)	693
SpeI	ACTAGT	1 cut(s)	476
Sse9I	AATT	7 cut(s)	195, 368, 400, 491, 535, 643, 689
SsiI	CCGC	1 cut(s)	209
SspI	AATATT	1 cut(s)	424
SspMI	CTAG	1 cut(s)	477
StyD4I	CCNGG	1 cut(s)	47
TaaI	ACNGT	3 cut(s)	77, 83, 365
TaiI	ACGT	1 cut(s)	44
TaqI	TCGA	5 cut(s)	86, 110, 314, 473, 572
TasI	AATT	7 cut(s)	195, 368, 400, 491, 535, 643, 689
TfiI	GAWTC	1 cut(s)	177
Tru1I	TTAA	2 cut(s)	533, 657
Tru9I	TTAA	2 cut(s)	533, 657
TscAI	CASTG	1 cut(s)	469
TseFI	GTSAC	2 cut(s)	77, 460
Tsp45I	GTSAC	2 cut(s)	77, 460
TspDTI	ATGAA	5 cut(s)	45, 257, 402, 503, 503
TspRI	CASTG	1 cut(s)	469
XapI	RAATTY	5 cut(s)	195, 400, 535, 643, 689
XspI	CTAG	1 cut(s)	477

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