Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000002

Orthogroup ID

OG0016247

Physical Location & Seq

Genomic Coordinates Reverse (-)

53220235 .. 53239872

Gene Structure 19638 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_2G00120830.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 540 bp

ATGAAGATTGAATTCCTTCCTCAACCACCTTACTCAACAAGCCTAATCAATCGTCCTTATCCCAAGGGGTATGAAACACCTAACTTCATTCTCTTTGATGGGAGGAAGGGAAGTCCAAGAGAACACATAAGTCGTTTCATTGATGCTTTTGAACCTTATGTCGAATCTCCGGAAGACGATGATCATGCTCCTAGAAGGATTCAAGGTGAAGTGAGCCGCCGTGGACGAAGAATGGAGGCTCGCCGGAAAAGCGGCCACGGGTTCGTGGATTTTTTCCGAAACCGGCAAGAGCTCCATTTAACCCACGGGTTCGCCGGATTTTTCCGAAACCGGCAAGAGCTCCGTTCAACCATAGGACGTAATGAGTTCATTATCATTGGAAATAGTGAAATTGAGAAGATGAGTGATGCAACAGCAACAAATTCATCTACTAATGAGGGTGAACTCGGTGAATGTGTGGGAGAAAATAATAAGAGTTCTCTTTTATGGAAATTTGTTACAATCCTTGTTCAATCTAAGAAAGGTGAAGGAGGCAATTAA

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

RVT_1 RVT_3 Retrotrans_gag

Protein Analysis

179

Amino Acids

20.51

Weight (kDa)

8.73

Isoelectric Point (pI)

64.19

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

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Align Labels (Cladogram)

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Publication-ready

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Orthologous Genes (Group: OG0016247)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_1g25685 FvH4_1g29804 FvH4_2g00082 FvH4_2g00083 FvH4_3g31631 FvH4_3g31632 FvH4_4g02081 FvH4_4g14568 FvH4_4g17921 FvH4_6g24054 FvH4_6g31271
rosa_multiflora	Rmu_sc0000744.1_g000132 Rmu_sc0002617.1_g000014
rosa_roxburghii	Rroxscaffold_2G00120830
rosa_samantha	Rh6BG488000

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccIII	TCCGGA	1 cut(s)	169
AciI	CCGC	2 cut(s)	217, 252
AcoI	YGGCCR	1 cut(s)	253
AcsI	RAATTY	3 cut(s)	11, 421, 491
AgsI	TTSAA	5 cut(s)	11, 152, 203, 348, 512
AluBI	AGCT	2 cut(s)	292, 340
AluI	AGCT	2 cut(s)	292, 340
Alw21I	GWGCWC	2 cut(s)	294, 342
Aor13HI	TCCGGA	1 cut(s)	169
AoxI	GGCC	1 cut(s)	253
ApoI	RAATTY	3 cut(s)	11, 421, 491
Asp700I	GAANNNNTTC	1 cut(s)	15
AsuHPI	GGTGA	4 cut(s)	218, 452, 461, 536
BanII	GRGCYC	2 cut(s)	294, 342
BbsI	GAAGAC	1 cut(s)	180
Bbv12I	GWGCWC	2 cut(s)	294, 342
BccI	CCATC	1 cut(s)	92
BceAI	ACGGC	1 cut(s)	204
BcgI	CGANNNNNNTGC	2 cut(s)	167, 201
BclI	TGATCA	1 cut(s)	181
BfaI	CTAG	1 cut(s)	192
BisI	GCNGC	2 cut(s)	217, 253
BlsI	GCNGC	2 cut(s)	218, 254
BmsI	GCATC	2 cut(s)	133, 397
BpiI	GAAGAC	1 cut(s)	180
BsaJI	CCNNGG	4 cut(s)	63, 220, 256, 304
BsaWI	WCCGGW	1 cut(s)	169
Bse118I	RCCGGY	2 cut(s)	282, 330
BseAI	TCCGGA	1 cut(s)	169
BseDI	CCNNGG	4 cut(s)	63, 220, 256, 304
BshFI	GGCC	1 cut(s)	255
BsiHKAI	GWGCWC	2 cut(s)	294, 342
BsiSI	CCGG	5 cut(s)	170, 244, 283, 315, 331
BsnI	GGCC	1 cut(s)	255
Bsp1286I	GDGCHC	2 cut(s)	294, 342
Bsp13I	TCCGGA	1 cut(s)	169
Bsp143I	GATC	1 cut(s)	181
BspACI	CCGC	2 cut(s)	217, 252
BspANI	GGCC	1 cut(s)	255
BspEI	TCCGGA	1 cut(s)	169
BsrFI	RCCGGY	2 cut(s)	282, 330
BssAI	RCCGGY	2 cut(s)	282, 330
BssECI	CCNNGG	4 cut(s)	63, 220, 256, 304
BssMI	GATC	1 cut(s)	181
BssT1I	CCWWGG	1 cut(s)	63
BstC8I	GCNNGC	1 cut(s)	241
BstDEI	CTNAG	1 cut(s)	516
BstDSI	CCRYGG	3 cut(s)	220, 256, 304
BstKTI	GATC	1 cut(s)	184
BstMBI	GATC	1 cut(s)	181
BstMWI	GCNNNNNNNGC	1 cut(s)	249
BstV2I	GAAGAC	1 cut(s)	180
BsuRI	GGCC	1 cut(s)	255
BtgI	CCRYGG	3 cut(s)	220, 256, 304
Cac8I	GCNNGC	1 cut(s)	241
Cfr10I	RCCGGY	2 cut(s)	282, 330
CviAII	CATG	1 cut(s)	185
CviJI	RGCY	6 cut(s)	42, 216, 239, 255, 292, 340
CviKI_1	RGCY	6 cut(s)	42, 216, 239, 255, 292, 340
DdeI	CTNAG	1 cut(s)	516
DpnI	GATC	1 cut(s)	183
DpnII	GATC	1 cut(s)	181
EaeI	YGGCCR	1 cut(s)	253
Ecl136II	GAGCTC	2 cut(s)	292, 340
Eco130I	CCWWGG	1 cut(s)	63
Eco24I	GRGCYC	2 cut(s)	294, 342
Eco53kI	GAGCTC	2 cut(s)	292, 340
EcoICRI	GAGCTC	2 cut(s)	292, 340
EcoRI	GAATTC	1 cut(s)	11
EcoT14I	CCWWGG	1 cut(s)	63
EcoT38I	GRGCYC	2 cut(s)	294, 342
ErhI	CCWWGG	1 cut(s)	63
FaeI	CATG	1 cut(s)	188
FaiI	YATR	6 cut(s)	72, 128, 159, 186, 353, 487
FatI	CATG	1 cut(s)	184
FbaI	TGATCA	1 cut(s)	181
Fnu4HI	GCNGC	2 cut(s)	217, 253
FriOI	GRGCYC	2 cut(s)	294, 342
Fsp4HI	GCNGC	2 cut(s)	217, 253
FspBI	CTAG	1 cut(s)	192
GluI	GCNGC	2 cut(s)	217, 253
HaeIII	GGCC	1 cut(s)	255
HapII	CCGG	5 cut(s)	170, 244, 283, 315, 331
Hin1II	CATG	1 cut(s)	188
HinfI	GANTC	2 cut(s)	164, 199
HpaII	CCGG	5 cut(s)	170, 244, 283, 315, 331
HphI	GGTGA	4 cut(s)	218, 452, 461, 536
Hpy166II	GTNNAC	2 cut(s)	224, 443
Hpy188I	TCNGA	2 cut(s)	278, 326
Hpy188III	TCNNGA	1 cut(s)	170
Hpy8I	GTNNAC	2 cut(s)	224, 443
HpyAV	CCTTC	4 cut(s)	26, 100, 189, 521
HpyCH4IV	ACGT	1 cut(s)	358
HpyCH4V	TGCA	1 cut(s)	410
HpyF10VI	GCNNNNNNNGC	1 cut(s)	249
HpyF3I	CTNAG	1 cut(s)	516
HpySE526I	ACGT	1 cut(s)	358
Hsp92II	CATG	1 cut(s)	188
Kpn2I	TCCGGA	1 cut(s)	169
Ksp22I	TGATCA	1 cut(s)	181
Kzo9I	GATC	1 cut(s)	181
LmnI	GCTCC	3 cut(s)	193, 297, 345
LpnPI	CCDG	5 cut(s)	183, 257, 296, 328, 344
LweI	GCATC	2 cut(s)	133, 397
MaeI	CTAG	1 cut(s)	192
MaeII	ACGT	1 cut(s)	358
MaeIII	GTNAC	1 cut(s)	496
MalI	GATC	1 cut(s)	183
MboI	GATC	1 cut(s)	181
MboII	GAAGA	4 cut(s)	16, 185, 240, 409
MhlI	GDGCHC	2 cut(s)	294, 342
MluCI	AATT	5 cut(s)	11, 390, 421, 491, 535
MnlI	CCTC	5 cut(s)	30, 96, 229, 430, 524
MroI	TCCGGA	1 cut(s)	169
MroXI	GAANNNNTTC	1 cut(s)	15
MseI	TTAA	2 cut(s)	299, 538
MspI	CCGG	5 cut(s)	170, 244, 283, 315, 331
MwoI	GCNNNNNNNGC	1 cut(s)	249
NdeII	GATC	1 cut(s)	181
NlaIII	CATG	1 cut(s)	188
PdmI	GAANNNNTTC	1 cut(s)	15
PfeI	GAWTC	2 cut(s)	164, 199
PkrI	GCNGC	2 cut(s)	218, 254
Psp124BI	GAGCTC	2 cut(s)	294, 342
SacI	GAGCTC	2 cut(s)	294, 342
SaqAI	TTAA	2 cut(s)	299, 538
SatI	GCNGC	2 cut(s)	217, 253
Sau3AI	GATC	1 cut(s)	181
SduI	GDGCHC	2 cut(s)	294, 342
SetI	ASST	8 cut(s)	31, 82, 157, 208, 294, 342, 361, 526
SfaNI	GCATC	2 cut(s)	133, 397
Sse9I	AATT	5 cut(s)	11, 390, 421, 491, 535
SsiI	CCGC	2 cut(s)	217, 252
SspMI	CTAG	1 cut(s)	192
SstI	GAGCTC	2 cut(s)	294, 342
StyI	CCWWGG	1 cut(s)	63
TaiI	ACGT	1 cut(s)	361
TaqI	TCGA	1 cut(s)	162
TasI	AATT	5 cut(s)	11, 390, 421, 491, 535
TauI	GCSGC	2 cut(s)	219, 255
TfiI	GAWTC	2 cut(s)	164, 199
Tru1I	TTAA	2 cut(s)	299, 538
Tru9I	TTAA	2 cut(s)	299, 538
TspDTI	ATGAA	6 cut(s)	17, 76, 87, 127, 358, 414
TspGWI	ACGGA	1 cut(s)	332
XapI	RAATTY	3 cut(s)	11, 421, 491
XmnI	GAANNNNTTC	1 cut(s)	15
XspI	CTAG	1 cut(s)	192

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