Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000001

Orthogroup ID

OG0001340

Physical Location & Seq

Genomic Coordinates Forward (+)

6217550 .. 6232079

Gene Structure 14530 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_1G00004520.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 759 bp

ATGAGGCATGAATACCTGCGTCAAGCCAAGTCCAAGTCAGGTCCAACTGCATGGAGTGCAATCCCAAGCTTACAGCTAAGAATGGCATGCAACAAAGATAAGGCATGCAATCGCACCGTCTGCAAATCCCTCACATACAAAGACAACCACCAACCCTGTACATCCTTGGATTCTATCTTGTTCTTCACTTTCTCTCCATTTTTCCTGCTTTTCTCTATTTTTCATAAAATTCTAACATGGTATCAAAGCCGGTTTCGATCCCGGGACTTGTGGGTTATGGGCCCACCACGCTTCCGCTCTATTGCTAGAGTTTTCATTCCCGATGAAGATATAGTGTTTCTGATCCTAAATGGATTACCTATTGAATATGCGACCATAAAGACCGTCATTAGAGCTCAACAGATGCCGATATCTCTAAGCGAGCTTCGCATAATATTATTGGATGCCGAGTTTGATATTGTTCAAGAATCAAGATCATTTGTTTTTGCTCCCGTGCTTAAGCACAAAGTACTACCATTGCCCTTTCTTACAGCCATGATTGCACATAATGGAATTGCTAATGGGAATGCATTTATCAATCCTGCAAATTATGGTCTATCCACCGGAACTAACCATATAAACCCTTATAATGGTTGTAATGTTGTTCCTATGAGTCATATGGGTTTTGTTCAGCCACCTGCATCTATTGGATTCATAATTCCTTCCTCTCGAATATACCAATGGGTTTCTCGGGTTCTCCGTCTCATCTACACTGTGTAG

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 gag_pre-integrs

Protein Analysis

252

Amino Acids

28.73

Weight (kDa)

9.77

Isoelectric Point (pI)

56.84

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: OG0001340)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_5g05651 FvH4_5g06481
malus_domestica	MD04G1150100.v1.1
rosa_chinensis	RchiOBHm_Chr1g0366871 RchiOBHm_Chr2g0112811 RchiOBHm_Chr5g0022021 RchiOBHm_Chr5g0050161 RchiOBHm_Chr7g0178931
rosa_laevigata	RLG00000030270 RLG00000030274 RLG00000030285 RLG00000030289
rosa_multiflora	Rmu_sc0000206.1_g000011 Rmu_sc0000539.1_g000041 Rmu_sc0001706.1_g000020 Rmu_sc0002245.1_g000029 Rmu_sc0002935.1_g000016 Rmu_sc0002952.1_g000016 Rmu_sc0002952.1_g000017 Rmu_sc0003371.1_g000005 Rmu_sc0004193.1_g000005 Rmu_sc0004359.1_g000018 Rmu_sc0006422.1_g000014 Rmu_sc0007594.1_g000001 Rmu_sc0010925.1_g000018 Rmu_sc0013146.1_g000003 Rmu_sc0031630.1_g000002 Rmu_sc0033466.1_g000001 Rmu_ssc0000079.1_g000006 Rmu_ssc0000423.1_g000006
rosa_roxburghii	Rroxscaffold_1G00004520 Rroxscaffold_1G00005520 Rroxscaffold_1G00041540 Rroxscaffold_1G00045310 Rroxscaffold_5G00361650 Rroxscaffold_6G00388920 Rroxscaffold_6G00405980 Rroxscaffold_6G00410140 Rroxscaffold_6G00423840 Rroxscaffold_7G00200050
rosa_rugosa	Rorug02G0433500 Rorug02G0433600 Rorug02G0433600 Rorug02G0433700 Rorug04G0166100.1 Rorug05G0053500 Rorug06G0481300
rosa_samantha	Rh1CG036200 Rh4AG051700 Rh4BG049000 Rh4CG055700
rosa_wichuraiana	Rw0G022690 Rw1G035930 Rw4G004120

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	627
AarI	CACCTGC	1 cut(s)	685
Acc36I	ACCTGC	2 cut(s)	24, 685
AccBSI	CCGCTC	1 cut(s)	297
AciI	CCGC	1 cut(s)	295
AclWI	GGATC	2 cut(s)	252, 337
AcsI	RAATTY	1 cut(s)	228
AfaI	GTAC	2 cut(s)	160, 510
AfiI	CCNNNNNNNGG	1 cut(s)	629
AflII	CTTAAG	1 cut(s)	497
AgsI	TTSAA	2 cut(s)	365, 464
AluBI	AGCT	4 cut(s)	69, 76, 395, 424
AluI	AGCT	4 cut(s)	69, 76, 395, 424
Alw21I	GWGCWC	1 cut(s)	397
Alw26I	GTCTC	1 cut(s)	746
AlwI	GGATC	2 cut(s)	252, 337
Ama87I	CYCGRG	2 cut(s)	261, 729
AoxI	GGCC	1 cut(s)	280
ApaI	GGGCCC	1 cut(s)	284
ApoI	RAATTY	1 cut(s)	228
AspS9I	GGNCC	3 cut(s)	41, 280, 281
AsuC2I	CCSGG	2 cut(s)	262, 263
AvaI	CYCGRG	2 cut(s)	261, 729
AvaII	GGWCC	1 cut(s)	41
BaeGI	GKGCMC	1 cut(s)	284
BanII	GRGCYC	2 cut(s)	284, 397
Bbv12I	GWGCWC	1 cut(s)	397
BcnI	CCSGG	2 cut(s)	262, 263
BcoDI	GTCTC	1 cut(s)	746
BfaI	CTAG	1 cut(s)	306
BfrI	CTTAAG	1 cut(s)	497
BfuAI	ACCTGC	2 cut(s)	24, 685
BmcAI	AGTACT	1 cut(s)	510
Bme1390I	CCNGG	2 cut(s)	262, 263
Bme18I	GGWCC	1 cut(s)	41
BmeT110I	CYCGRG	2 cut(s)	261, 729
BmgT120I	GGNCC	3 cut(s)	41, 280, 281
BmiI	GGNNCC	1 cut(s)	282
BmrFI	CCNGG	2 cut(s)	262, 263
BmsI	GCATC	3 cut(s)	393, 433, 689
BpuMI	CCSGG	2 cut(s)	262, 263
BsaJI	CCNNGG	2 cut(s)	165, 261
BsaWI	WCCGGW	1 cut(s)	602
BsaXI	ACNNNNNCTCC	2 cut(s)	178, 208
Bsc4I	CCNNNNNNNGG	1 cut(s)	629
Bse118I	RCCGGY	1 cut(s)	249
Bse3DI	GCAATG	1 cut(s)	515
BseDI	CCNNGG	2 cut(s)	165, 261
BseGI	GGATG	2 cut(s)	161, 448
BseLI	CCNNNNNNNGG	1 cut(s)	629
BseMI	GCAATG	1 cut(s)	515
BseSI	GKGCMC	1 cut(s)	284
BshFI	GGCC	1 cut(s)	282
BsiHKAI	GWGCWC	1 cut(s)	397
BsiHKCI	CYCGRG	2 cut(s)	261, 729
BsiSI	CCGG	3 cut(s)	250, 262, 603
BslFI	GGGAC	1 cut(s)	278
BslI	CCNNNNNNNGG	1 cut(s)	629
BsmAI	GTCTC	1 cut(s)	746
BsmBI	CGTCTC	1 cut(s)	746
BsmFI	GGGAC	1 cut(s)	278
BsmI	GAATGC	1 cut(s)	571
BsnI	GGCC	1 cut(s)	282
BsoBI	CYCGRG	2 cut(s)	261, 729
Bsp120I	GGGCCC	1 cut(s)	280
Bsp1286I	GDGCHC	2 cut(s)	284, 397
Bsp1407I	TGTACA	1 cut(s)	158
Bsp143I	GATC	3 cut(s)	257, 342, 473
BspACI	CCGC	1 cut(s)	295
BspANI	GGCC	1 cut(s)	282
BspLI	GGNNCC	1 cut(s)	282
BspMI	ACCTGC	2 cut(s)	24, 685
BspPI	GGATC	2 cut(s)	252, 337
BspTI	CTTAAG	1 cut(s)	497
BsrBI	CCGCTC	1 cut(s)	297
BsrDI	GCAATG	1 cut(s)	515
BsrFI	RCCGGY	1 cut(s)	249
BsrGI	TGTACA	1 cut(s)	158
BssAI	RCCGGY	1 cut(s)	249
BssECI	CCNNGG	2 cut(s)	165, 261
BssMI	GATC	3 cut(s)	257, 342, 473
BssT1I	CCWWGG	1 cut(s)	165
Bst4CI	ACNGT	3 cut(s)	118, 385, 754
BstAFI	CTTAAG	1 cut(s)	497
BstAPI	GCANNNNNTGC	2 cut(s)	56, 120
BstAUI	TGTACA	1 cut(s)	158
BstC8I	GCNNGC	3 cut(s)	88, 106, 422
BstDEI	CTNAG	2 cut(s)	77, 416
BstF5I	GGATG	2 cut(s)	161, 448
BstKTI	GATC	3 cut(s)	260, 345, 476
BstMAI	GTCTC	1 cut(s)	746
BstMBI	GATC	3 cut(s)	257, 342, 473
BstMWI	GCNNNNNNNGC	5 cut(s)	56, 120, 288, 426, 539
BstNSI	RCATGY	2 cut(s)	90, 108
BstSCI	CCNGG	2 cut(s)	260, 261
BstSLI	GKGCMC	1 cut(s)	284
BstXI	CCANNNNNNTGG	1 cut(s)	51
BsuRI	GGCC	1 cut(s)	282
BtsCI	GGATG	2 cut(s)	161, 448
BtsIMutI	CAGTG	1 cut(s)	750
BveI	ACCTGC	2 cut(s)	24, 685
Cac8I	GCNNGC	3 cut(s)	88, 106, 422
Cfr10I	RCCGGY	1 cut(s)	249
Cfr13I	GGNCC	3 cut(s)	41, 280, 281
Cfr9I	CCCGGG	1 cut(s)	261
CseI	GACGC	1 cut(s)	8
Csp6I	GTAC	2 cut(s)	159, 509
CviAII	CATG	6 cut(s)	8, 51, 87, 105, 237, 535
CviJI	RGCY	9 cut(s)	26, 69, 76, 249, 282, 395, 424, 533, 673
CviKI_1	RGCY	9 cut(s)	26, 69, 76, 249, 282, 395, 424, 533, 673
CviQI	GTAC	2 cut(s)	159, 509
DdeI	CTNAG	2 cut(s)	77, 416
DpnI	GATC	3 cut(s)	259, 344, 475
DpnII	GATC	3 cut(s)	257, 342, 473
Ecl136II	GAGCTC	1 cut(s)	395
Eco130I	CCWWGG	1 cut(s)	165
Eco24I	GRGCYC	2 cut(s)	284, 397
Eco32I	GATATC	1 cut(s)	411
Eco47I	GGWCC	1 cut(s)	41
Eco53kI	GAGCTC	1 cut(s)	395
Eco88I	CYCGRG	2 cut(s)	261, 729
EcoICRI	GAGCTC	1 cut(s)	395
EcoRV	GATATC	1 cut(s)	411
EcoT14I	CCWWGG	1 cut(s)	165
EcoT22I	ATGCAT	1 cut(s)	571
EcoT38I	GRGCYC	2 cut(s)	284, 397
ErhI	CCWWGG	1 cut(s)	165
Esp3I	CGTCTC	1 cut(s)	746
FaeI	CATG	6 cut(s)	11, 54, 90, 108, 240, 538
FaqI	GGGAC	1 cut(s)	278
FatI	CATG	6 cut(s)	7, 50, 86, 104, 236, 534
FauNDI	CATATG	1 cut(s)	657
FokI	GGATG	2 cut(s)	148, 455
FriOI	GRGCYC	2 cut(s)	284, 397
FspBI	CTAG	1 cut(s)	306
HaeIII	GGCC	1 cut(s)	282
HapII	CCGG	3 cut(s)	250, 262, 603
HgaI	GACGC	1 cut(s)	8
Hin1II	CATG	6 cut(s)	11, 54, 90, 108, 240, 538
HindIII	AAGCTT	1 cut(s)	67
HinfI	GANTC	4 cut(s)	170, 467, 652, 690
HpaII	CCGG	3 cut(s)	250, 262, 603
Hpy188I	TCNGA	1 cut(s)	342
Hpy188III	TCNNGA	4 cut(s)	320, 464, 471, 708
HpyAV	CCTTC	1 cut(s)	711
HpyCH4III	ACNGT	3 cut(s)	118, 385, 754
HpyCH4V	TGCA	9 cut(s)	50, 59, 90, 108, 123, 542, 569, 584, 680
HpyF10VI	GCNNNNNNNGC	5 cut(s)	56, 120, 288, 426, 539
HpyF3I	CTNAG	2 cut(s)	77, 416
Hsp92II	CATG	6 cut(s)	11, 54, 90, 108, 240, 538
Kzo9I	GATC	3 cut(s)	257, 342, 473
LmnI	GCTCC	1 cut(s)	493
LpnPI	CCDG	9 cut(s)	24, 29, 169, 218, 263, 275, 594, 616, 690
LweI	GCATC	3 cut(s)	393, 433, 689
MaeI	CTAG	1 cut(s)	306
MalI	GATC	3 cut(s)	259, 344, 475
MbiI	CCGCTC	1 cut(s)	297
MboI	GATC	3 cut(s)	257, 342, 473
MboII	GAAGA	2 cut(s)	175, 338
MhlI	GDGCHC	2 cut(s)	284, 397
MluCI	AATT	4 cut(s)	228, 552, 586, 696
MlyI	GAGTC	1 cut(s)	661
MmeI	TCCRAC	1 cut(s)	68
MnlI	CCTC	2 cut(s)	140, 715
Mph1103I	ATGCAT	1 cut(s)	571
MseI	TTAA	1 cut(s)	498
MspCI	CTTAAG	1 cut(s)	497
MspI	CCGG	3 cut(s)	250, 262, 603
MspR9I	CCNGG	2 cut(s)	262, 263
Mva1269I	GAATGC	1 cut(s)	571
MwoI	GCNNNNNNNGC	5 cut(s)	56, 120, 288, 426, 539
NciI	CCSGG	2 cut(s)	262, 263
NdeI	CATATG	1 cut(s)	657
NdeII	GATC	3 cut(s)	257, 342, 473
NlaIII	CATG	6 cut(s)	11, 54, 90, 108, 240, 538
NlaIV	GGNNCC	1 cut(s)	282
NmeAIII	GCCGAG	1 cut(s)	472
NsiI	ATGCAT	1 cut(s)	571
NspI	RCATGY	2 cut(s)	90, 108
PaeI	GCATGC	2 cut(s)	90, 108
PaqCI	CACCTGC	1 cut(s)	685
PcsI	WCGNNNNNNNCGW	1 cut(s)	736
PctI	GAATGC	1 cut(s)	571
PfeI	GAWTC	3 cut(s)	170, 467, 690
PleI	GAGTC	1 cut(s)	660
PpsI	GAGTC	1 cut(s)	660
PsiI	TTATAA	1 cut(s)	627
Psp124BI	GAGCTC	1 cut(s)	397
PspN4I	GGNNCC	1 cut(s)	282
PspOMI	GGGCCC	1 cut(s)	280
PspPI	GGNCC	3 cut(s)	41, 280, 281
RsaI	GTAC	2 cut(s)	160, 510
RsaNI	GTAC	2 cut(s)	159, 509
SacI	GAGCTC	1 cut(s)	397
SaqAI	TTAA	1 cut(s)	498
Sau3AI	GATC	3 cut(s)	257, 342, 473
Sau96I	GGNCC	3 cut(s)	41, 280, 281
ScaI	AGTACT	1 cut(s)	510
SchI	GAGTC	1 cut(s)	661
ScrFI	CCNGG	2 cut(s)	262, 263
SduI	GDGCHC	2 cut(s)	284, 397
SetI	ASST	8 cut(s)	18, 43, 71, 78, 361, 397, 426, 679
SfaNI	GCATC	3 cut(s)	393, 433, 689
SinI	GGWCC	1 cut(s)	41
SmaI	CCCGGG	1 cut(s)	263
SmlI	CTYRAG	1 cut(s)	497
SmoI	CTYRAG	1 cut(s)	497
SphI	GCATGC	2 cut(s)	90, 108
Sse9I	AATT	4 cut(s)	228, 552, 586, 696
SsiI	CCGC	1 cut(s)	295
SspI	AATATT	1 cut(s)	435
SspMI	CTAG	1 cut(s)	306
SstI	GAGCTC	1 cut(s)	397
StyD4I	CCNGG	2 cut(s)	260, 261
StyI	CCWWGG	1 cut(s)	165
TaaI	ACNGT	3 cut(s)	118, 385, 754
TaqI	TCGA	2 cut(s)	256, 709
TasI	AATT	4 cut(s)	228, 552, 586, 696
TatI	WGTACW	2 cut(s)	158, 508
TfiI	GAWTC	3 cut(s)	170, 467, 690
Tru1I	TTAA	1 cut(s)	498
Tru9I	TTAA	1 cut(s)	498
TscAI	CASTG	1 cut(s)	757
TspDTI	ATGAA	5 cut(s)	24, 212, 304, 339, 682
TspGWI	ACGGA	1 cut(s)	728
TspMI	CCCGGG	1 cut(s)	261
TspRI	CASTG	1 cut(s)	757
Vha464I	CTTAAG	1 cut(s)	497
VpaK11BI	GGWCC	1 cut(s)	41
XapI	RAATTY	1 cut(s)	228
XceI	RCATGY	2 cut(s)	90, 108
XmaI	CCCGGG	1 cut(s)	261
XspI	CTAG	1 cut(s)	306
ZrmI	AGTACT	1 cut(s)	510
Zsp2I	ATGCAT	1 cut(s)	571

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