Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000002

Orthogroup ID

OG0006963

Physical Location & Seq

Genomic Coordinates Reverse (-)

34644020 .. 34644857

Gene Structure 838 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_2G00110370.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 612 bp

ATGTCAAACTCGAACATACTCGATTTTGTTCCATTGGATTATGCAGGCAAGAGATACATATTGTGGGCTCGGGACGTTGAGCTCCATCTTATTTCCCGTGATCTATTGCACACAATCCAAGAGCTTTGTTATGAAGGAACTGCTCCGGACCCTCAAACCGAGATTGACAATTCCGGGGCACTTGCCCTAATGAGGTGTCATATGGATAGAGACCTCCGGTTTGAGTTCATGAAAGAGGATAGCGCCATAAAGCTTTGGCAAGCGCTTCATGAACGTCATGGCAATATCACAAGCTTTCAAAAGCTTATTGAAGCTATGGAAATTGCTGAAAGGCAAGACAACGAGCTTGTGAGAAGAGAAATTGATAGGCTTCGAGATAGCTATCTAGAGCATCGTCCCATGGCTAGAGAAAGTCACCACGGACGTCATGATCCATATGATCGAAATGCTTATGAAGGTAGTCGCCAAAGGCGACAATCACACCACCGTAGGAGCCGTGATTTTGAGGGACTAAGGGTTGGAAACCATAGAGCCAACGTTGGCCATGGTCATACTCTTCCAACACCTCGGGTCCTAGGGACCATGCACATTGCGCCAATTCGCCTCAATTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Retrotran_gag_2 zf-CCHC

Protein Analysis

203

Amino Acids

23.9

Weight (kDa)

6.96

Isoelectric Point (pI)

60.55

Instability Index

Protein Domains (Pfam)

No Pfam domains detected for this protein.

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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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: OG0006963)

Species	Orthologous Gene IDs
rosa_chinensis	RchiOBHm_Chr1g0323081 RchiOBHm_Chr2g0168921 RchiOBHm_Chr3g0488021 RchiOBHm_Chr7g0240151
rosa_multiflora	Rmu_sc0000394.1_g000060 Rmu_sc0006867.1_g000028 Rmu_sc0015156.1_g000005
rosa_roxburghii	Rroxscaffold_2G00110370 Rroxscaffold_4G00296000 Rroxscaffold_4G00296010 Rroxscaffold_5G00378770
rosa_rugosa	Rorug06G0510400
rosa_samantha	Rh2BG204600 Rh2BG204700 Rh2BG440000 Rh2BG539600 Rh2DG026100 Rh2DG291000 Rh4CG266000 Rh5BG195600 Rh6AG373800 Rh6DG133200 Rh7CG424800 Rh7CG511100
rosa_wichuraiana	Rw4G020380 Rw6G018910

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AatII	GACGTC	1 cut(s)	427
AccIII	TCCGGA	1 cut(s)	145
AclI	AACGTT	1 cut(s)	537
AclWI	GGATC	1 cut(s)	425
AcoI	YGGCCR	1 cut(s)	541
AcyI	GRCGYC	1 cut(s)	424
AfeI	AGCGCT	1 cut(s)	264
AfiI	CCNNNNNNNGG	1 cut(s)	192
AgsI	TTSAA	2 cut(s)	299, 311
AluBI	AGCT	8 cut(s)	82, 124, 253, 294, 304, 314, 346, 381
AluI	AGCT	8 cut(s)	82, 124, 253, 294, 304, 314, 346, 381
Alw21I	GWGCWC	1 cut(s)	84
Alw26I	GTCTC	1 cut(s)	204
AlwI	GGATC	1 cut(s)	425
Ama87I	CYCGRG	2 cut(s)	69, 567
Aor13HI	TCCGGA	1 cut(s)	145
Aor51HI	AGCGCT	1 cut(s)	264
AoxI	GGCC	1 cut(s)	541
ArsI	GACNNNNNNTTYG	2 cut(s)	203, 235
AspA2I	CCTAGG	1 cut(s)	574
AspLEI	GCGC	3 cut(s)	245, 265, 595
AspS9I	GGNCC	3 cut(s)	148, 571, 579
AsuC2I	CCSGG	1 cut(s)	175
AsuHPI	GGTGA	1 cut(s)	407
AvaI	CYCGRG	2 cut(s)	69, 567
AvaII	GGWCC	3 cut(s)	148, 571, 579
AvrII	CCTAGG	1 cut(s)	574
BaeGI	GKGCMC	1 cut(s)	181
BalI	TGGCCA	1 cut(s)	543
BanII	GRGCYC	2 cut(s)	70, 84
Bbv12I	GWGCWC	1 cut(s)	84
BccI	CCATC	1 cut(s)	93
BceAI	ACGGC	1 cut(s)	480
BcnI	CCSGG	1 cut(s)	175
BcoDI	GTCTC	1 cut(s)	204
BfaI	CTAG	3 cut(s)	386, 405, 575
BfoI	RGCGCY	2 cut(s)	246, 266
BlnI	CCTAGG	1 cut(s)	574
Bme1390I	CCNGG	1 cut(s)	175
Bme18I	GGWCC	3 cut(s)	148, 571, 579
BmeT110I	CYCGRG	2 cut(s)	69, 567
BmgT120I	GGNCC	3 cut(s)	148, 571, 579
BmiI	GGNNCC	4 cut(s)	150, 494, 572, 580
BmrFI	CCNGG	1 cut(s)	175
BmsI	GCATC	1 cut(s)	400
BpuMI	CCSGG	1 cut(s)	175
BsaBI	GATNNNNATC	1 cut(s)	381
BsaHI	GRCGYC	1 cut(s)	424
BsaI	GGTCTC	1 cut(s)	204
BsaJI	CCNNGG	6 cut(s)	174, 399, 418, 544, 566, 574
BsaWI	WCCGGW	2 cut(s)	145, 216
Bsc4I	CCNNNNNNNGG	1 cut(s)	192
Bse3DI	GCAATG	1 cut(s)	588
Bse8I	GATNNNNATC	1 cut(s)	381
BseAI	TCCGGA	1 cut(s)	145
BseDI	CCNNGG	6 cut(s)	174, 399, 418, 544, 566, 574
BseJI	GATNNNNATC	1 cut(s)	381
BseLI	CCNNNNNNNGG	1 cut(s)	192
BseMI	GCAATG	1 cut(s)	588
BseSI	GKGCMC	1 cut(s)	181
BshFI	GGCC	1 cut(s)	543
BsiHKAI	GWGCWC	1 cut(s)	84
BsiHKCI	CYCGRG	2 cut(s)	69, 567
BsiSI	CCGG	3 cut(s)	146, 174, 217
BslFI	GGGAC	4 cut(s)	86, 381, 522, 592
BslI	CCNNNNNNNGG	1 cut(s)	192
BsmAI	GTCTC	1 cut(s)	204
BsmFI	GGGAC	4 cut(s)	86, 381, 522, 592
BsnI	GGCC	1 cut(s)	543
Bso31I	GGTCTC	1 cut(s)	204
BsoBI	CYCGRG	2 cut(s)	69, 567
Bsp1286I	GDGCHC	3 cut(s)	70, 84, 181
Bsp13I	TCCGGA	1 cut(s)	145
Bsp143I	GATC	3 cut(s)	100, 430, 439
Bsp19I	CCATGG	2 cut(s)	399, 544
BspANI	GGCC	1 cut(s)	543
BspEI	TCCGGA	1 cut(s)	145
BspHI	TCATGA	3 cut(s)	228, 268, 427
BspLI	GGNNCC	4 cut(s)	150, 494, 572, 580
BspPI	GGATC	1 cut(s)	425
BspTNI	GGTCTC	1 cut(s)	204
BsrDI	GCAATG	1 cut(s)	588
BssECI	CCNNGG	6 cut(s)	174, 399, 418, 544, 566, 574
BssMI	GATC	3 cut(s)	100, 430, 439
BssNI	GRCGYC	1 cut(s)	424
BssT1I	CCWWGG	3 cut(s)	399, 544, 574
Bst4CI	ACNGT	1 cut(s)	488
Bst6I	CTCTTC	2 cut(s)	349, 561
BstACI	GRCGYC	1 cut(s)	424
BstC8I	GCNNGC	2 cut(s)	46, 261
BstDEI	CTNAG	1 cut(s)	512
BstDSI	CCRYGG	3 cut(s)	399, 418, 544
BstH2I	RGCGCY	2 cut(s)	246, 266
BstHHI	GCGC	3 cut(s)	245, 265, 595
BstKTI	GATC	3 cut(s)	103, 433, 442
BstMAI	GTCTC	1 cut(s)	204
BstMBI	GATC	3 cut(s)	100, 430, 439
BstMWI	GCNNNNNNNGC	1 cut(s)	592
BstSCI	CCNGG	1 cut(s)	173
BstSLI	GKGCMC	1 cut(s)	181
BsuRI	GGCC	1 cut(s)	543
BtgI	CCRYGG	3 cut(s)	399, 418, 544
Cac8I	GCNNGC	2 cut(s)	46, 261
CciI	TCATGA	3 cut(s)	228, 268, 427
CfoI	GCGC	3 cut(s)	245, 265, 595
Cfr13I	GGNCC	3 cut(s)	148, 571, 579
CviAII	CATG	7 cut(s)	229, 269, 278, 400, 428, 545, 583
DdeI	CTNAG	1 cut(s)	512
DpnI	GATC	3 cut(s)	102, 432, 441
DpnII	GATC	3 cut(s)	100, 430, 439
EaeI	YGGCCR	1 cut(s)	541
Eam1104I	CTCTTC	2 cut(s)	349, 561
EarI	CTCTTC	2 cut(s)	349, 561
Ecl136II	GAGCTC	1 cut(s)	82
Eco130I	CCWWGG	3 cut(s)	399, 544, 574
Eco24I	GRGCYC	2 cut(s)	70, 84
Eco31I	GGTCTC	1 cut(s)	204
Eco47I	GGWCC	3 cut(s)	148, 571, 579
Eco47III	AGCGCT	1 cut(s)	264
Eco53kI	GAGCTC	1 cut(s)	82
Eco88I	CYCGRG	2 cut(s)	69, 567
EcoICRI	GAGCTC	1 cut(s)	82
EcoO109I	RGGNCCY	1 cut(s)	571
EcoT14I	CCWWGG	3 cut(s)	399, 544, 574
EcoT38I	GRGCYC	2 cut(s)	70, 84
ErhI	CCWWGG	3 cut(s)	399, 544, 574
FaeI	CATG	7 cut(s)	232, 272, 281, 403, 431, 548, 586
FaqI	GGGAC	4 cut(s)	86, 381, 522, 592
FatI	CATG	7 cut(s)	228, 268, 277, 399, 427, 544, 582
FauNDI	CATATG	2 cut(s)	201, 436
FriOI	GRGCYC	2 cut(s)	70, 84
FspBI	CTAG	3 cut(s)	386, 405, 575
GlaI	GCGC	3 cut(s)	244, 264, 594
HaeII	RGCGCY	2 cut(s)	246, 266
HaeIII	GGCC	1 cut(s)	543
HapII	CCGG	3 cut(s)	146, 174, 217
HhaI	GCGC	3 cut(s)	245, 265, 595
Hin1I	GRCGYC	1 cut(s)	424
Hin1II	CATG	7 cut(s)	232, 272, 281, 403, 431, 548, 586
Hin6I	GCGC	3 cut(s)	243, 263, 593
HinP1I	GCGC	3 cut(s)	243, 263, 593
HindIII	AAGCTT	3 cut(s)	251, 292, 302
HpaII	CCGG	3 cut(s)	146, 174, 217
HphI	GGTGA	1 cut(s)	407
Hpy188III	TCNNGA	7 cut(s)	71, 146, 229, 269, 374, 386, 428
HpyAV	CCTTC	2 cut(s)	128, 449
HpyCH4III	ACNGT	1 cut(s)	488
HpyCH4IV	ACGT	4 cut(s)	75, 274, 424, 537
HpyCH4V	TGCA	3 cut(s)	44, 109, 586
HpyF10VI	GCNNNNNNNGC	1 cut(s)	592
HpyF3I	CTNAG	1 cut(s)	512
HpySE526I	ACGT	4 cut(s)	75, 274, 424, 537
Hsp92I	GRCGYC	1 cut(s)	424
Hsp92II	CATG	7 cut(s)	232, 272, 281, 403, 431, 548, 586
HspAI	GCGC	3 cut(s)	243, 263, 593
Kpn2I	TCCGGA	1 cut(s)	145
Kzo9I	GATC	3 cut(s)	100, 430, 439
LmnI	GCTCC	3 cut(s)	87, 148, 492
LpnPI	CCDG	4 cut(s)	30, 159, 187, 230
LweI	GCATC	1 cut(s)	400
MaeI	CTAG	3 cut(s)	386, 405, 575
MaeII	ACGT	4 cut(s)	75, 274, 424, 537
MaeIII	GTNAC	1 cut(s)	413
MalI	GATC	3 cut(s)	102, 432, 441
MboI	GATC	3 cut(s)	100, 430, 439
MboII	GAAGA	2 cut(s)	366, 548
MhlI	GDGCHC	3 cut(s)	70, 84, 181
MlsI	TGGCCA	1 cut(s)	543
MluCI	AATT	5 cut(s)	169, 321, 360, 597, 607
MluNI	TGGCCA	1 cut(s)	543
MmeI	TCCRAC	2 cut(s)	499, 584
MnlI	CCTC	6 cut(s)	162, 186, 224, 229, 499, 576
Mox20I	TGGCCA	1 cut(s)	543
MroI	TCCGGA	1 cut(s)	145
MscI	TGGCCA	1 cut(s)	543
MseI	TTAA	1 cut(s)	610
Msp20I	TGGCCA	1 cut(s)	543
MspI	CCGG	3 cut(s)	146, 174, 217
MspR9I	CCNGG	1 cut(s)	175
MwoI	GCNNNNNNNGC	1 cut(s)	592
NciI	CCSGG	1 cut(s)	175
NcoI	CCATGG	2 cut(s)	399, 544
NdeI	CATATG	2 cut(s)	201, 436
NdeII	GATC	3 cut(s)	100, 430, 439
NlaIII	CATG	7 cut(s)	232, 272, 281, 403, 431, 548, 586
NlaIV	GGNNCC	4 cut(s)	150, 494, 572, 580
NmuCI	GTSAC	1 cut(s)	413
PagI	TCATGA	3 cut(s)	228, 268, 427
PcsI	WCGNNNNNNNCGW	1 cut(s)	469
PpuMI	RGGWCCY	1 cut(s)	571
Psp124BI	GAGCTC	1 cut(s)	84
Psp1406I	AACGTT	1 cut(s)	537
Psp5II	RGGWCCY	1 cut(s)	571
PspN4I	GGNNCC	4 cut(s)	150, 494, 572, 580
PspPI	GGNCC	3 cut(s)	148, 571, 579
PspPPI	RGGWCCY	1 cut(s)	571
SacI	GAGCTC	1 cut(s)	84
SaqAI	TTAA	1 cut(s)	610
Sau3AI	GATC	3 cut(s)	100, 430, 439
Sau96I	GGNCC	3 cut(s)	148, 571, 579
ScrFI	CCNGG	1 cut(s)	175
SduI	GDGCHC	3 cut(s)	70, 84, 181
SfaNI	GCATC	1 cut(s)	400
SinI	GGWCC	3 cut(s)	148, 571, 579
Sse9I	AATT	5 cut(s)	169, 321, 360, 597, 607
SspMI	CTAG	3 cut(s)	386, 405, 575
SstI	GAGCTC	1 cut(s)	84
StyD4I	CCNGG	1 cut(s)	173
StyI	CCWWGG	3 cut(s)	399, 544, 574
TaaI	ACNGT	1 cut(s)	488
TaiI	ACGT	4 cut(s)	78, 277, 427, 540
TaqI	TCGA	4 cut(s)	11, 21, 373, 442
TasI	AATT	5 cut(s)	169, 321, 360, 597, 607
Tru1I	TTAA	1 cut(s)	610
Tru9I	TTAA	1 cut(s)	610
TseFI	GTSAC	1 cut(s)	413
Tsp45I	GTSAC	1 cut(s)	413
TspDTI	ATGAA	6 cut(s)	147, 217, 245, 257, 285, 468
TspGWI	ACGGA	1 cut(s)	435
VpaK11BI	GGWCC	3 cut(s)	148, 571, 579
XbaI	TCTAGA	1 cut(s)	385
XmaJI	CCTAGG	1 cut(s)	574
XspI	CTAG	3 cut(s)	386, 405, 575
ZraI	GACGTC	1 cut(s)	425

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