Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000005

Orthogroup ID

OG0000962

Physical Location & Seq

Genomic Coordinates Reverse (-)

11029116 .. 11037416

Gene Structure 8301 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_5G00342230.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 720 bp

ATGCCTTATCTCCAGGCCTCCACCAAGCATGAAGTAAAGCGCTTTGTTGATCTCACTGTTGATGATATCAGTGATCTTTGGGATAATAGTCAAAAGGTTGGCAGTCGGCTTGAGAGCTACCACAAAGCAACATCTCTAACACTGATGATTCAAGTGGATATTGCTGCTGGATGGCATTCTACTGCACTAACAGATGATGGAGAGGTGTATGGATGGGGCCGAGGGGAACATGGTAGACTTGGTTTCGGCGAGAATGATAAGAGCAGTAAAATGGTCCAGCAAAAGGTTCATCTTTTAGCTGGGGAGGATATCGTTCAGATAGGACTTTGCCCAGAAGCTGCAAATCACTTGCAAGAAATGAAGGACATGCTAATTGCCATATCAAATGAACTGCTTGATGATGTCAATGAACTTTGCCTTCTTTCCTTTGCAGCTGCATTCAGGAATGACCCCGTGAGATTTGATTCAGAGGTTCATCTACATAATGAGGCAGGAGGATATGCAGAGTGGAATTCATCATCAGTTGAGAGGTTGTCGGCCAACAATGGAGGCAAGGAACCTCGTCCGTGGTCGTGGTCGTGTACGACGGACACGGATTTGTGTCCGGAAGGCCGATATGGGCAGCATCCGGAGGCGTGCGGAGGGCGACAAATCGCCGGAGGCCGAGCCGATGGTCGGAAGCTTTTTGGACTAAAGACGTCGTGCGATGGCATGGTGTAG

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

RCC1

Protein Analysis

239

Amino Acids

26.32

Weight (kDa)

5.07

Isoelectric Point (pI)

38.33

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
WD40_RLD	PF25390	52 - 107	4.3e-11	RCC1-like domain
RCC1_2	PF13540	53 - 78	5e-07	Regulator of chromosome condensation (RCC1) repeat
RCC1	PF00415	66 - 107	2.5e-06	Regulator of chromosome condensation (RCC1) repeat

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

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Orthologous Genes (Group: OG0000962)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G10930
fragaria_vesca	FvH4_5g28920 FvH4_5g28920
malus_domestica	MD02G1262900.v1.1 MD07G1056800.v1.1 MD07G1057400.v1.1
prunus_persica	Prupe.4G271400_v2.0.a1 Prupe.4G271400_v2.0.a1 Prupe.4G271400_v2.0.a1 Prupe.4G271400_v2.0.a1 Prupe.4G271400_v2.0.a1
pyrus_communis	pycom02g22480 pycom02g22490 pycom02g22530 pycom07g04380
rosa_chinensis	RchiOBHm_Chr2g0101731 RchiOBHm_Chr2g0146651 RchiOBHm_Chr3g0471841 RchiOBHm_Chr4g0402091 RchiOBHm_Chr5g0019321 RchiOBHm_Chr7g0221231
rosa_laevigata	RLG00000002168 RLG00000008436
rosa_multiflora	Rmu_co8338979.1_g000001 Rmu_co8389917.1_g000001 Rmu_sc0000212.1_g000013 Rmu_sc0000324.1_g000016 Rmu_sc0000518.1_g000001 Rmu_sc0000808.1_g000043 Rmu_sc0002206.1_g000018 Rmu_sc0002551.1_g000024 Rmu_sc0004296.1_g000023 Rmu_sc0009806.1_g000017 Rmu_sc0032411.1_g000001 Rmu_ssc0000291.1_g000025
rosa_roxburghii	Rroxscaffold_176G00431210 Rroxscaffold_1G00026280 Rroxscaffold_3G00238540 Rroxscaffold_4G00313160 Rroxscaffold_4G00330040 Rroxscaffold_5G00342230 Rroxscaffold_5G00352050
rosa_rugosa	Rorug07G0201600 Rorug07G0253300
rosa_samantha	Rh1BG131100 Rh1CG101400 Rh2BG215600 Rh2CG271000 Rh4DG065200 Rh4DG134600 Rh5AG275200 Rh5AG434000 Rh7AG340500 Rh7BG172400 Rh7BG331600 Rh7BG331700 Rh7CG358400 Rh7DG335700 Rh7DG335800 Rh7DG339200 Rh7DG339300
rosa_wichuraiana	Rw6G023870 Rw7G028980

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AatII	GACGTC	1 cut(s)	701
AccI	GTMKAC	1 cut(s)	235
AccIII	TCCGGA	2 cut(s)	604, 628
AciI	CCGC	1 cut(s)	639
AcoI	YGGCCR	1 cut(s)	537
AcsI	RAATTY	1 cut(s)	511
AcyI	GRCGYC	1 cut(s)	698
AfaI	GTAC	1 cut(s)	583
AfeI	AGCGCT	1 cut(s)	41
AfiI	CCNNNNNNNGG	2 cut(s)	283, 675
AgsI	TTSAA	1 cut(s)	152
AjnI	CCWGG	1 cut(s)	12
AluBI	AGCT	5 cut(s)	117, 299, 338, 434, 682
AluI	AGCT	5 cut(s)	117, 299, 338, 434, 682
AlwNI	CAGNNNCTG	1 cut(s)	338
Aor13HI	TCCGGA	2 cut(s)	604, 628
Aor51HI	AGCGCT	1 cut(s)	41
AoxI	GGCC	5 cut(s)	15, 217, 537, 610, 661
ApeKI	GCWGC	5 cut(s)	164, 338, 431, 434, 622
ApoI	RAATTY	1 cut(s)	511
AspLEI	GCGC	1 cut(s)	42
AspS9I	GGNCC	2 cut(s)	217, 274
AvaII	GGWCC	1 cut(s)	274
BbvI	GCAGC	5 cut(s)	151, 325, 421, 443, 634
BccI	CCATC	5 cut(s)	165, 191, 207, 665, 701
BciT130I	CCWGG	1 cut(s)	14
BfoI	RGCGCY	1 cut(s)	43
BisI	GCNGC	5 cut(s)	165, 339, 432, 435, 623
BlsI	GCNGC	5 cut(s)	166, 340, 433, 436, 624
Bme1390I	CCNGG	1 cut(s)	14
Bme18I	GGWCC	1 cut(s)	274
BmgT120I	GGNCC	2 cut(s)	217, 274
BmiI	GGNNCC	2 cut(s)	218, 558
BmrFI	CCNGG	1 cut(s)	14
BmsI	GCATC	1 cut(s)	634
BpuEI	CTTGAG	1 cut(s)	131
BsaHI	GRCGYC	1 cut(s)	698
BsaJI	CCNNGG	2 cut(s)	220, 566
BsaWI	WCCGGW	2 cut(s)	604, 628
Bsc4I	CCNNNNNNNGG	2 cut(s)	283, 675
BseAI	TCCGGA	2 cut(s)	604, 628
BseBI	CCWGG	1 cut(s)	14
BseDI	CCNNGG	2 cut(s)	220, 566
BseGI	GGATG	3 cut(s)	176, 218, 625
BseLI	CCNNNNNNNGG	2 cut(s)	283, 675
BseXI	GCAGC	5 cut(s)	151, 325, 421, 443, 634
BseYI	CCCAGC	1 cut(s)	299
BsgI	GTGCAG	1 cut(s)	168
BshFI	GGCC	5 cut(s)	17, 219, 539, 612, 663
BsiSI	CCGG	3 cut(s)	605, 629, 657
BslI	CCNNNNNNNGG	2 cut(s)	283, 675
BsmI	GAATGC	2 cut(s)	175, 437
BsnI	GGCC	5 cut(s)	17, 219, 539, 612, 663
Bsp13I	TCCGGA	2 cut(s)	604, 628
Bsp143I	GATC	2 cut(s)	49, 73
BspACI	CCGC	1 cut(s)	639
BspANI	GGCC	5 cut(s)	17, 219, 539, 612, 663
BspEI	TCCGGA	2 cut(s)	604, 628
BspLI	GGNNCC	2 cut(s)	218, 558
BssECI	CCNNGG	2 cut(s)	220, 566
BssMI	GATC	2 cut(s)	49, 73
BssNI	GRCGYC	1 cut(s)	698
Bst2UI	CCWGG	1 cut(s)	14
Bst4CI	ACNGT	1 cut(s)	58
BstACI	GRCGYC	1 cut(s)	698
BstC8I	GCNNGC	1 cut(s)	637
BstDSI	CCRYGG	1 cut(s)	566
BstF5I	GGATG	3 cut(s)	176, 218, 625
BstH2I	RGCGCY	1 cut(s)	43
BstHHI	GCGC	1 cut(s)	42
BstKTI	GATC	2 cut(s)	52, 76
BstMBI	GATC	2 cut(s)	49, 73
BstNI	CCWGG	1 cut(s)	14
BstNSI	RCATGY	1 cut(s)	370
BstSCI	CCNGG	1 cut(s)	12
BstV1I	GCAGC	5 cut(s)	151, 325, 421, 443, 634
BsuRI	GGCC	5 cut(s)	17, 219, 539, 612, 663
BtgI	CCRYGG	1 cut(s)	566
BtsCI	GGATG	3 cut(s)	176, 218, 625
BtsIMutI	CAGTG	3 cut(s)	54, 76, 140
Cac8I	GCNNGC	1 cut(s)	637
CaiI	CAGNNNCTG	1 cut(s)	338
CfoI	GCGC	1 cut(s)	42
Cfr13I	GGNCC	2 cut(s)	217, 274
Csp6I	GTAC	1 cut(s)	582
CviAII	CATG	4 cut(s)	29, 230, 367, 712
CviQI	GTAC	1 cut(s)	582
DpnI	GATC	2 cut(s)	51, 75
DpnII	GATC	2 cut(s)	49, 73
EaeI	YGGCCR	1 cut(s)	537
Eco147I	AGGCCT	1 cut(s)	17
Eco32I	GATATC	2 cut(s)	67, 310
Eco47I	GGWCC	1 cut(s)	274
Eco47III	AGCGCT	1 cut(s)	41
EcoRI	GAATTC	1 cut(s)	511
EcoRII	CCWGG	1 cut(s)	12
EcoRV	GATATC	2 cut(s)	67, 310
FaeI	CATG	4 cut(s)	32, 233, 370, 715
FaiI	YATR	9 cut(s)	30, 210, 231, 368, 380, 483, 501, 618, 713
FatI	CATG	4 cut(s)	28, 229, 366, 711
FblI	GTMKAC	1 cut(s)	235
Fnu4HI	GCNGC	5 cut(s)	165, 339, 432, 435, 623
FokI	GGATG	3 cut(s)	183, 225, 612
Fsp4HI	GCNGC	5 cut(s)	165, 339, 432, 435, 623
GlaI	GCGC	1 cut(s)	41
GluI	GCNGC	5 cut(s)	165, 339, 432, 435, 623
GsaI	CCCAGC	1 cut(s)	303
HaeII	RGCGCY	1 cut(s)	43
HaeIII	GGCC	5 cut(s)	17, 219, 539, 612, 663
HapII	CCGG	3 cut(s)	605, 629, 657
HhaI	GCGC	1 cut(s)	42
Hin1I	GRCGYC	1 cut(s)	698
Hin1II	CATG	4 cut(s)	32, 233, 370, 715
Hin6I	GCGC	1 cut(s)	40
HinP1I	GCGC	1 cut(s)	40
HindIII	AAGCTT	1 cut(s)	680
HinfI	GANTC	2 cut(s)	148, 464
HpaII	CCGG	3 cut(s)	605, 629, 657
Hpy166II	GTNNAC	2 cut(s)	236, 582
Hpy188I	TCNGA	3 cut(s)	318, 469, 678
Hpy188III	TCNNGA	3 cut(s)	442, 605, 629
Hpy8I	GTNNAC	2 cut(s)	236, 582
Hpy99I	CGWCG	2 cut(s)	589, 703
HpyAV	CCTTC	3 cut(s)	355, 428, 602
HpyCH4III	ACNGT	1 cut(s)	58
HpyCH4IV	ACGT	1 cut(s)	698
HpyCH4V	TGCA	6 cut(s)	185, 341, 352, 431, 437, 503
HpySE526I	ACGT	1 cut(s)	698
Hsp92I	GRCGYC	1 cut(s)	698
Hsp92II	CATG	4 cut(s)	32, 233, 370, 715
HspAI	GCGC	1 cut(s)	40
Kpn2I	TCCGGA	2 cut(s)	604, 628
Kzo9I	GATC	2 cut(s)	49, 73
Lsp1109I	GCAGC	5 cut(s)	151, 325, 421, 443, 634
LweI	GCATC	1 cut(s)	634
MaeII	ACGT	1 cut(s)	698
MalI	GATC	2 cut(s)	51, 75
MboI	GATC	2 cut(s)	49, 73
MluCI	AATT	2 cut(s)	372, 511
MmeI	TCCRAC	1 cut(s)	656
MroI	TCCGGA	2 cut(s)	604, 628
MspA1I	CMGCKG	1 cut(s)	434
MspI	CCGG	3 cut(s)	605, 629, 657
MspR9I	CCNGG	1 cut(s)	14
Mva1269I	GAATGC	2 cut(s)	175, 437
MvaI	CCWGG	1 cut(s)	14
NdeII	GATC	2 cut(s)	49, 73
NlaIII	CATG	4 cut(s)	32, 233, 370, 715
NlaIV	GGNNCC	2 cut(s)	218, 558
NmeAIII	GCCGAG	2 cut(s)	245, 689
NspI	RCATGY	1 cut(s)	370
PceI	AGGCCT	1 cut(s)	17
PctI	GAATGC	2 cut(s)	175, 437
PfeI	GAWTC	2 cut(s)	148, 464
PkrI	GCNGC	5 cut(s)	166, 340, 433, 436, 624
Psp6I	CCWGG	1 cut(s)	12
PspFI	CCCAGC	1 cut(s)	299
PspGI	CCWGG	1 cut(s)	12
PspN4I	GGNNCC	2 cut(s)	218, 558
PspPI	GGNCC	2 cut(s)	217, 274
PstNI	CAGNNNCTG	1 cut(s)	338
PvuII	CAGCTG	1 cut(s)	434
RsaI	GTAC	1 cut(s)	583
RsaNI	GTAC	1 cut(s)	582
SatI	GCNGC	5 cut(s)	165, 339, 432, 435, 623
Sau3AI	GATC	2 cut(s)	49, 73
Sau96I	GGNCC	2 cut(s)	217, 274
ScrFI	CCNGG	1 cut(s)	14
SfaNI	GCATC	1 cut(s)	634
SinI	GGWCC	1 cut(s)	274
SmlI	CTYRAG	1 cut(s)	110
SmoI	CTYRAG	1 cut(s)	110
Sse9I	AATT	2 cut(s)	372, 511
SseBI	AGGCCT	1 cut(s)	17
SsiI	CCGC	1 cut(s)	639
StuI	AGGCCT	1 cut(s)	17
StyD4I	CCNGG	1 cut(s)	12
TaaI	ACNGT	1 cut(s)	58
TaiI	ACGT	1 cut(s)	701
TasI	AATT	2 cut(s)	372, 511
TfiI	GAWTC	2 cut(s)	148, 464
TscAI	CASTG	3 cut(s)	61, 76, 147
TseI	GCWGC	5 cut(s)	164, 338, 431, 434, 622
TspDTI	ATGAA	7 cut(s)	45, 278, 374, 402, 423, 464, 504
TspGWI	ACGGA	3 cut(s)	555, 602, 608
TspRI	CASTG	3 cut(s)	61, 76, 147
VpaK11BI	GGWCC	1 cut(s)	274
XapI	RAATTY	1 cut(s)	511
XceI	RCATGY	1 cut(s)	370
XmiI	GTMKAC	1 cut(s)	235
ZraI	GACGTC	1 cut(s)	699

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