Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000003

Orthogroup ID

OG0000962

Physical Location & Seq

Genomic Coordinates Forward (+)

26742162 .. 26743649

Gene Structure 1488 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_3G00238540.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 669 bp

ATGCAGATAGGACTTTGCCCAGAAGCTGCAAATCATTTGCAAGAAATGAAGGACATGCTAATTGCCATATCAAATGAACTGCTTGATGATGTCAATGAACTCAGTCCAAAGCAAATAGCAGCTTCATTCAGGAATGACCCCGTGAGATTTGATTCAGAGGTTCATCTACATAATGAGGCAGGAGGATATGCAGAGTGGAATTCATCATCAGTTTCATCCTCTTCTACGGATAAGTTTGGTTTCTCTTCTTTTCCTGTTGAGAGAGAACCTTACATCCCAAAGTTTGTTGAAGTTAACTATACTGAAGGTTCAAATGACAAGAAGTGGAGGGATGGTCCCTTTCCGTGGACTAAAGAGCTGGAGGCTAATAATAAGAGAGTGTTTGGTAACCACTCTTTCCGCCTCAACCAAAGAGAGGTCATTAATGCTACAATGAGTGGCCATGATGTTTTCGTTTTAATGCCAACTGGAGGGGGTAAGAGCCTGACATATCAGGTACTTGAATCTTTTTCTCACAACTCTTTTGACTTGTTCCTGGCAAATATTCCTGCTGCTTACCTAAGTGCCAATATGGAGTGGAGTGAACAACAGGAGATTCTTAGAGCACTGAGTTCTGAATATTGTAAATACAAGCTGTTATATGTCACCCCTGAAAAAGTTGCCAAGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000724 GO:0000725 GO:0001101 GO:0003674 GO:0003676 GO:0003677 GO:0003678 GO:0003824 GO:0004003 GO:0004386 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005694 GO:0005737 GO:0005911 GO:0006139 GO:0006259 GO:0006281 GO:0006302 GO:0006310 GO:0006725 GO:0006807 GO:0006950 GO:0006974 GO:0006996 GO:0008026 GO:0008094 GO:0008150 GO:0008152 GO:0009266 GO:0009378 GO:0009409 GO:0009506 GO:0009628 GO:0009719 GO:0009725 GO:0009737 GO:0009987 GO:0010033 GO:0016043 GO:0016462 GO:0016787 GO:0016817 GO:0016818 GO:0016887 GO:0017111 GO:0030054 GO:0032392 GO:0032508 GO:0032870 GO:0033554 GO:0033993 GO:0034641 GO:0042221 GO:0042623 GO:0043138 GO:0043140 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0044237 GO:0044238 GO:0044260 GO:0044424 GO:0044464 GO:0046483 GO:0050896 GO:0051276 GO:0051716 GO:0055044 GO:0070035 GO:0070417 GO:0070887 GO:0071103 GO:0071215 GO:0071229 GO:0071310 GO:0071396 GO:0071495 GO:0071704 GO:0071840 GO:0090304 GO:0097159 GO:0097305 GO:0097306 GO:0140097 GO:1901360 GO:1901363 GO:1901700 GO:1901701

KEGG Pathways

Metabolic & Signaling

ko03018 ko03440 ko03460 map03018 map03440 map03460

Pfam Domains

Protein Families

DEAD HRDC Helicase_C RQC RecQ_Zn_bind

Protein Analysis

222

Amino Acids

25.17

Weight (kDa)

5.18

Isoelectric Point (pI)

48.63

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DEAD	PF00270	136 - 166	6.7e-06	DEAD/DEAH box helicase

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)
AciI	CCGC	1 cut(s)	400
AcoI	YGGCCR	1 cut(s)	439
AcsI	RAATTY	1 cut(s)	199
AcuI	CTGAAG	1 cut(s)	324
AfaI	GTAC	1 cut(s)	498
AfiI	CCNNNNNNNGG	3 cut(s)	345, 415, 470
AgsI	TTSAA	3 cut(s)	290, 312, 503
AjnI	CCWGG	1 cut(s)	534
AloI	GAACNNNNNNTCC	2 cut(s)	258, 290
AluBI	AGCT	4 cut(s)	26, 122, 358, 634
AluI	AGCT	4 cut(s)	26, 122, 358, 634
Alw21I	GWGCWC	1 cut(s)	607
AlwNI	CAGNNNCTG	1 cut(s)	26
AoxI	GGCC	1 cut(s)	439
ApeKI	GCWGC	3 cut(s)	26, 119, 551
ApoI	RAATTY	1 cut(s)	199
AseI	ATTAAT	1 cut(s)	423
AspS9I	GGNCC	1 cut(s)	335
AsuHPI	GGTGA	1 cut(s)	637
AvaII	GGWCC	1 cut(s)	335
BalI	TGGCCA	1 cut(s)	441
Bbv12I	GWGCWC	1 cut(s)	607
BbvI	GCAGC	3 cut(s)	13, 131, 538
BccI	CCATC	1 cut(s)	326
BciT130I	CCWGG	1 cut(s)	536
BisI	GCNGC	3 cut(s)	27, 120, 552
BlsI	GCNGC	3 cut(s)	28, 121, 553
Bme1390I	CCNGG	1 cut(s)	536
Bme18I	GGWCC	1 cut(s)	335
BmgT120I	GGNCC	1 cut(s)	335
BmiI	GGNNCC	1 cut(s)	337
BmrFI	CCNGG	1 cut(s)	536
BpmI	CTGGAG	2 cut(s)	380, 489
BsaJI	CCNNGG	1 cut(s)	344
BsaXI	ACNNNNNCTCC	2 cut(s)	319, 349
Bsc4I	CCNNNNNNNGG	3 cut(s)	345, 415, 470
Bse1I	ACTGG	1 cut(s)	472
BseBI	CCWGG	1 cut(s)	536
BseDI	CCNNGG	1 cut(s)	344
BseGI	GGATG	3 cut(s)	215, 273, 337
BseLI	CCNNNNNNNGG	3 cut(s)	345, 415, 470
BseMII	CTCAG	2 cut(s)	115, 599
BseNI	ACTGG	1 cut(s)	472
BseXI	GCAGC	3 cut(s)	13, 131, 538
BshFI	GGCC	1 cut(s)	441
BsiHKAI	GWGCWC	1 cut(s)	607
BslFI	GGGAC	1 cut(s)	321
BslI	CCNNNNNNNGG	3 cut(s)	345, 415, 470
BsmFI	GGGAC	1 cut(s)	321
BsnI	GGCC	1 cut(s)	441
Bsp1286I	GDGCHC	1 cut(s)	607
BspACI	CCGC	1 cut(s)	400
BspANI	GGCC	1 cut(s)	441
BspCNI	CTCAG	2 cut(s)	114, 600
BspLI	GGNNCC	1 cut(s)	337
BsrI	ACTGG	1 cut(s)	472
BssECI	CCNNGG	1 cut(s)	344
Bst2UI	CCWGG	1 cut(s)	536
Bst6I	CTCTTC	2 cut(s)	226, 250
BstDEI	CTNAG	4 cut(s)	101, 560, 599, 608
BstDSI	CCRYGG	1 cut(s)	344
BstEII	GGTNACC	1 cut(s)	386
BstF5I	GGATG	3 cut(s)	215, 273, 337
BstNI	CCWGG	1 cut(s)	536
BstNSI	RCATGY	1 cut(s)	58
BstPI	GGTNACC	1 cut(s)	386
BstSCI	CCNGG	1 cut(s)	534
BstV1I	GCAGC	3 cut(s)	13, 131, 538
BsuRI	GGCC	1 cut(s)	441
BtgI	CCRYGG	1 cut(s)	344
BtsCI	GGATG	3 cut(s)	215, 273, 337
BtsIMutI	CAGTG	1 cut(s)	605
CaiI	CAGNNNCTG	1 cut(s)	26
Cfr13I	GGNCC	1 cut(s)	335
Csp6I	GTAC	1 cut(s)	497
CviAII	CATG	2 cut(s)	55, 443
CviJI	RGCY	7 cut(s)	26, 122, 358, 365, 441, 483, 634
CviKI_1	RGCY	7 cut(s)	26, 122, 358, 365, 441, 483, 634
CviQI	GTAC	1 cut(s)	497
DdeI	CTNAG	4 cut(s)	101, 560, 599, 608
EaeI	YGGCCR	1 cut(s)	439
Eam1104I	CTCTTC	2 cut(s)	226, 250
EarI	CTCTTC	2 cut(s)	226, 250
EciI	GGCGGA	1 cut(s)	389
Eco47I	GGWCC	1 cut(s)	335
Eco57I	CTGAAG	1 cut(s)	324
Eco91I	GGTNACC	1 cut(s)	386
EcoO65I	GGTNACC	1 cut(s)	386
EcoRI	GAATTC	1 cut(s)	199
EcoRII	CCWGG	1 cut(s)	534
FaeI	CATG	2 cut(s)	58, 446
FaqI	GGGAC	1 cut(s)	321
FatI	CATG	2 cut(s)	54, 442
Fnu4HI	GCNGC	3 cut(s)	27, 120, 552
FokI	GGATG	3 cut(s)	202, 260, 344
Fsp4HI	GCNGC	3 cut(s)	27, 120, 552
GluI	GCNGC	3 cut(s)	27, 120, 552
GsuI	CTGGAG	2 cut(s)	380, 489
HaeIII	GGCC	1 cut(s)	441
Hin1II	CATG	2 cut(s)	58, 446
HincII	GTYRAC	1 cut(s)	295
HindII	GTYRAC	1 cut(s)	295
HinfI	GANTC	3 cut(s)	152, 503, 595
HpaI	GTTAAC	1 cut(s)	295
HphI	GGTGA	1 cut(s)	637
Hpy166II	GTNNAC	3 cut(s)	295, 348, 584
Hpy188I	TCNGA	2 cut(s)	157, 616
Hpy188III	TCNNGA	1 cut(s)	130
Hpy8I	GTNNAC	3 cut(s)	295, 348, 584
HpyAV	CCTTC	2 cut(s)	43, 299
HpyCH4V	TGCA	4 cut(s)	4, 29, 40, 191
HpyF3I	CTNAG	4 cut(s)	101, 560, 599, 608
Hsp92II	CATG	2 cut(s)	58, 446
KspAI	GTTAAC	1 cut(s)	295
Lsp1109I	GCAGC	3 cut(s)	13, 131, 538
MaeIII	GTNAC	2 cut(s)	386, 643
MboII	GAAGA	2 cut(s)	213, 237
MhlI	GDGCHC	1 cut(s)	607
MlsI	TGGCCA	1 cut(s)	441
MluCI	AATT	2 cut(s)	60, 199
MluNI	TGGCCA	1 cut(s)	441
MnlI	CCTC	9 cut(s)	151, 169, 176, 229, 321, 355, 409, 413, 464
Mox20I	TGGCCA	1 cut(s)	441
MscI	TGGCCA	1 cut(s)	441
MseI	TTAA	3 cut(s)	294, 423, 458
Msp20I	TGGCCA	1 cut(s)	441
MspR9I	CCNGG	1 cut(s)	536
MvaI	CCWGG	1 cut(s)	536
NlaIII	CATG	2 cut(s)	58, 446
NlaIV	GGNNCC	1 cut(s)	337
NmuCI	GTSAC	1 cut(s)	643
NspI	RCATGY	1 cut(s)	58
PfeI	GAWTC	3 cut(s)	152, 503, 595
PkrI	GCNGC	3 cut(s)	28, 121, 553
PshBI	ATTAAT	1 cut(s)	423
Psp6I	CCWGG	1 cut(s)	534
PspEI	GGTNACC	1 cut(s)	386
PspGI	CCWGG	1 cut(s)	534
PspN4I	GGNNCC	1 cut(s)	337
PspPI	GGNCC	1 cut(s)	335
PstNI	CAGNNNCTG	1 cut(s)	26
RsaI	GTAC	1 cut(s)	498
RsaNI	GTAC	1 cut(s)	497
SaqAI	TTAA	3 cut(s)	294, 423, 458
SatI	GCNGC	3 cut(s)	27, 120, 552
Sau96I	GGNCC	1 cut(s)	335
ScrFI	CCNGG	1 cut(s)	536
SduI	GDGCHC	1 cut(s)	607
SinI	GGWCC	1 cut(s)	335
Sse9I	AATT	2 cut(s)	60, 199
SsiI	CCGC	1 cut(s)	400
SspI	AATATT	2 cut(s)	544, 620
StyD4I	CCNGG	1 cut(s)	534
TasI	AATT	2 cut(s)	60, 199
TfiI	GAWTC	3 cut(s)	152, 503, 595
Tru1I	TTAA	3 cut(s)	294, 423, 458
Tru9I	TTAA	3 cut(s)	294, 423, 458
TscAI	CASTG	1 cut(s)	612
TseFI	GTSAC	1 cut(s)	643
TseI	GCWGC	3 cut(s)	26, 119, 551
Tsp45I	GTSAC	1 cut(s)	643
TspDTI	ATGAA	7 cut(s)	62, 90, 111, 114, 152, 192, 204
TspGWI	ACGGA	2 cut(s)	242, 333
TspRI	CASTG	1 cut(s)	612
VpaK11BI	GGWCC	1 cut(s)	335
VspI	ATTAAT	1 cut(s)	423
XapI	RAATTY	1 cut(s)	199
XceI	RCATGY	1 cut(s)	58

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