Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000006

Orthogroup ID

OG0001616

Physical Location & Seq

Genomic Coordinates Forward (+)

11909673 .. 11910569

Gene Structure 897 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug06G0089500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 897 bp

ATGACTCAGGTCAGTGACTTAATTTCGGATTCTTGTTGGAATGCTGCTCTTATTGAGAATATTTTTGATCCTGTTGATGCAAATTTGATATTAGCTATTCCCTTGAGTTCGAGGTTAGTCCCAGATAGGCTTATTTGGCACTTTGATGCTAAAGGGCTTTTTACTACTAAAACTGCTTATGTTCAAGCTTTTAATTTGCTGCACTCTCCTGCTTCTGCTTCTAGCAATGATTCTGGTACCTTGCTATGGAAACGGTTATGGGCCGCTAAAGTTCCGGGTAAGGTTAAAGTGCATACTTGGAGATTTTGTTCTTCTATTTTACCTACTATTTCCCAGCTTCGTCAAAGGCATGTTTATATTGAGGGTGGTTGCGCTTTATGTAACGATGCGGATGAGTCTGTTGAGCATGTTAGTCGAGATTGCCCCTTTGTTAAATGTATTCTTTGCCGGTGCCCTGGGCTAGGAGGCATTTTTGCTAACCATTCGGAGGCTTCGTGCTTGGATTGGTTGCAGGTATGTTCAGAGTCTCTTTCTGAAGATCTTTTTTCTCTTCTCTTATGGGGGATTTGGTCTATTTGGAAAGAAAGGAATAAGAGGGTTTGGCAAGATAAATGGTCTTCTCCTGAGCAAGTGAGGTATGGTATTTATTCCCAAAAGTTACTTTTCAAATCAGTTGGACTGAGTCAGAGACGGGTTGGGAGCAGGGTGACTAAACCTTGGTCTCCTCCTCCAGTCGGTTGGTTGAAAGCTAATATTGATGGTGCTTTTGATAAGAATTCATGTTCTGGCGGCATCGGGGTGATAGTGAGGGACTCTGATGGGTTGATTATGGGTGGTTGTTGCTGCAAAGTTGGTAGGGTTTTGTCTCCGGCTTTGGTGGAAGCTCTAGCTGCCTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0000373 GO:0000375 GO:0000377 GO:0003006 GO:0003674 GO:0003676 GO:0003723 GO:0003724 GO:0003824 GO:0004004 GO:0004386 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005730 GO:0005737 GO:0006139 GO:0006396 GO:0006397 GO:0006725 GO:0006807 GO:0006810 GO:0007275 GO:0008026 GO:0008150 GO:0008152 GO:0008186 GO:0008380 GO:0009507 GO:0009532 GO:0009536 GO:0009570 GO:0009790 GO:0009791 GO:0009793 GO:0009892 GO:0009987 GO:0010154 GO:0010467 GO:0010468 GO:0010494 GO:0010496 GO:0010497 GO:0010501 GO:0010605 GO:0010608 GO:0010629 GO:0016070 GO:0016071 GO:0016441 GO:0016458 GO:0016462 GO:0016787 GO:0016817 GO:0016818 GO:0016887 GO:0017111 GO:0019222 GO:0022414 GO:0031974 GO:0031981 GO:0032501 GO:0032502 GO:0032991 GO:0034641 GO:0035770 GO:0036464 GO:0040029 GO:0042623 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044434 GO:0044435 GO:0044444 GO:0044446 GO:0044464 GO:0046483 GO:0048316 GO:0048519 GO:0048608 GO:0048731 GO:0048856 GO:0050789 GO:0051179 GO:0051234 GO:0060255 GO:0061458 GO:0065007 GO:0070013 GO:0070035 GO:0071704 GO:0090304 GO:0097159 GO:0140098 GO:1901360 GO:1901363 GO:1990904

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

DEAD DSHCT Helicase_C

Protein Analysis

298

Amino Acids

32.97

Weight (kDa)

8.51

Isoelectric Point (pI)

53.6

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-RVT	PF13966	78 - 145	2.8e-14	zinc-binding in reverse transcriptase

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)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0001616)

Species	Orthologous Gene IDs
rosa_chinensis	RchiOBHm_Chr2g0102891
rosa_laevigata	RLG00000003325 RLG00000010663 RLG00000014743 RLG00000021608 RLG00000028731
rosa_multiflora	Rmu_co8212272.1_g000001 Rmu_co8257291.1_g000001 Rmu_sc0000375.1_g000004 Rmu_sc0001619.1_g000004 Rmu_sc0002160.1_g000017 Rmu_sc0002960.1_g000003 Rmu_sc0004031.1_g000010 Rmu_sc0011657.1_g000008 Rmu_sc0014046.1_g000004
rosa_roxburghii	Rroxscaffold_1G00024170 Rroxscaffold_2G00149140 Rroxscaffold_5G00382470
rosa_rugosa	Rorug02G0226400 Rorug02G0226500 Rorug04G0046600 Rorug05G0408800 Rorug05G0408900 Rorug06G0089500 Rorug06G0089600 Rorug06G0089700.1 Rorug06G0089800
rosa_samantha	Rh1BG120900 Rh2AG219500 Rh2AG390100 Rh2BG229500 Rh2CG165000 Rh2DG225900 Rh2DG381600 Rh3BG369300 Rh3CG331600 Rh3DG328600 Rh4AG016000 Rh4AG058100 Rh4BG056900 Rh4CG112600 Rh4CG219300 Rh4CG219400 Rh4DG021700 Rh5DG477800 Rh5DG495600 Rh7AG221500 Rh7AG324600 Rh7CG341400
rosa_wichuraiana	Rw1G015160

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	502
Acc65I	GGTACC	1 cut(s)	236
AccB1I	GGYRCC	2 cut(s)	236, 450
AciI	CCGC	3 cut(s)	264, 389, 789
AclWI	GGATC	1 cut(s)	62
AcsI	RAATTY	2 cut(s)	82, 775
AcuI	CTGAAG	1 cut(s)	555
AfaI	GTAC	1 cut(s)	238
AfiI	CCNNNNNNNGG	4 cut(s)	246, 461, 487, 734
AgsI	TTSAA	3 cut(s)	185, 667, 745
AjnI	CCWGG	1 cut(s)	454
AloI	GAACNNNNNNTCC	2 cut(s)	292, 324
AluBI	AGCT	6 cut(s)	95, 188, 337, 749, 884, 890
AluI	AGCT	6 cut(s)	95, 188, 337, 749, 884, 890
Alw26I	GTCTC	4 cut(s)	531, 682, 726, 870
AlwI	GGATC	1 cut(s)	62
AoxI	GGCC	1 cut(s)	261
ApeKI	GCWGC	4 cut(s)	44, 199, 843, 890
ApoI	RAATTY	2 cut(s)	82, 775
Asp718I	GGTACC	1 cut(s)	236
AspLEI	GCGC	1 cut(s)	374
AspS9I	GGNCC	1 cut(s)	261
AsuC2I	CCSGG	1 cut(s)	276
AsuHPI	GGTGA	2 cut(s)	718, 811
BaeGI	GKGCMC	1 cut(s)	455
BanI	GGYRCC	2 cut(s)	236, 450
BbsI	GAAGAC	1 cut(s)	609
BbvI	GCAGC	4 cut(s)	31, 186, 830, 877
BccI	CCATC	2 cut(s)	752, 812
BcgI	CGANNNNNNTGC	2 cut(s)	395, 429
BciT130I	CCWGG	1 cut(s)	456
BcnI	CCSGG	1 cut(s)	276
BcoDI	GTCTC	4 cut(s)	531, 682, 726, 870
BfaI	CTAG	3 cut(s)	222, 461, 887
BfuAI	ACCTGC	1 cut(s)	502
BglII	AGATCT	1 cut(s)	538
BisI	GCNGC	6 cut(s)	45, 200, 264, 790, 844, 891
BlsI	GCNGC	6 cut(s)	46, 201, 265, 791, 845, 892
Bme1390I	CCNGG	2 cut(s)	276, 456
BmgT120I	GGNCC	1 cut(s)	261
BmiI	GGNNCC	2 cut(s)	238, 452
BmrFI	CCNGG	2 cut(s)	276, 456
BmsI	GCATC	4 cut(s)	67, 136, 376, 801
BoxI	GACNNNNGTC	1 cut(s)	8
BpiI	GAAGAC	1 cut(s)	609
BpmI	CTGGAG	1 cut(s)	714
Bpu10I	CCTNAGC	1 cut(s)	624
BpuEI	CTTGAG	1 cut(s)	124
BpuMI	CCSGG	1 cut(s)	276
BsaI	GGTCTC	1 cut(s)	726
BsaJI	CCNNGG	3 cut(s)	454, 455, 716
BsaXI	ACNNNNNCTCC	4 cut(s)	292, 322, 479, 509
Bsc4I	CCNNNNNNNGG	4 cut(s)	246, 461, 487, 734
Bse118I	RCCGGY	1 cut(s)	447
Bse1I	ACTGG	1 cut(s)	731
Bse3DI	GCAATG	1 cut(s)	232
BseBI	CCWGG	1 cut(s)	456
BseDI	CCNNGG	3 cut(s)	454, 455, 716
BseGI	GGATG	1 cut(s)	397
BseLI	CCNNNNNNNGG	4 cut(s)	246, 461, 487, 734
BseMI	GCAATG	1 cut(s)	232
BseMII	CTCAG	3 cut(s)	20, 615, 671
BseNI	ACTGG	1 cut(s)	731
BseRI	GAGGAG	2 cut(s)	714, 717
BseSI	GKGCMC	1 cut(s)	455
BseXI	GCAGC	4 cut(s)	31, 186, 830, 877
BseYI	CCCAGC	1 cut(s)	333
BsgI	GTGCAG	1 cut(s)	185
BshFI	GGCC	1 cut(s)	263
BshNI	GGYRCC	2 cut(s)	236, 450
BsiSI	CCGG	3 cut(s)	275, 448, 869
BslFI	GGGAC	2 cut(s)	104, 824
BslI	CCNNNNNNNGG	4 cut(s)	246, 461, 487, 734
BsmAI	GTCTC	4 cut(s)	531, 682, 726, 870
BsmBI	CGTCTC	1 cut(s)	682
BsmFI	GGGAC	2 cut(s)	104, 824
BsmI	GAATGC	1 cut(s)	46
BsnI	GGCC	1 cut(s)	263
Bso31I	GGTCTC	1 cut(s)	726
Bsp1286I	GDGCHC	1 cut(s)	455
Bsp143I	GATC	2 cut(s)	67, 538
BspACI	CCGC	3 cut(s)	264, 389, 789
BspANI	GGCC	1 cut(s)	263
BspCNI	CTCAG	3 cut(s)	19, 616, 672
BspLI	GGNNCC	2 cut(s)	238, 452
BspMI	ACCTGC	1 cut(s)	502
BspPI	GGATC	1 cut(s)	62
BspT107I	GGYRCC	2 cut(s)	236, 450
BspTNI	GGTCTC	1 cut(s)	726
BsrDI	GCAATG	1 cut(s)	232
BsrFI	RCCGGY	1 cut(s)	447
BsrI	ACTGG	1 cut(s)	731
BssAI	RCCGGY	1 cut(s)	447
BssECI	CCNNGG	3 cut(s)	454, 455, 716
BssMI	GATC	2 cut(s)	67, 538
BssT1I	CCWWGG	1 cut(s)	716
Bst2UI	CCWGG	1 cut(s)	456
Bst4CI	ACNGT	1 cut(s)	255
Bst6I	CTCTTC	1 cut(s)	555
BstDEI	CTNAG	3 cut(s)	6, 624, 680
BstENI	CCTNNNNNAGG	1 cut(s)	459
BstF5I	GGATG	1 cut(s)	397
BstHHI	GCGC	1 cut(s)	374
BstKTI	GATC	2 cut(s)	70, 541
BstMAI	GTCTC	4 cut(s)	531, 682, 726, 870
BstMBI	GATC	2 cut(s)	67, 538
BstMWI	GCNNNNNNNGC	2 cut(s)	136, 890
BstNI	CCWGG	1 cut(s)	456
BstNSI	RCATGY	2 cut(s)	353, 410
BstPAI	GACNNNNGTC	1 cut(s)	8
BstSCI	CCNGG	2 cut(s)	274, 454
BstSLI	GKGCMC	1 cut(s)	455
BstV1I	GCAGC	4 cut(s)	31, 186, 830, 877
BstV2I	GAAGAC	1 cut(s)	609
BstX2I	RGATCY	1 cut(s)	538
BstXI	CCANNNNNNTGG	1 cut(s)	738
BstYI	RGATCY	1 cut(s)	538
BsuRI	GGCC	1 cut(s)	263
BtsCI	GGATG	1 cut(s)	397
BtsIMutI	CAGTG	1 cut(s)	19
BveI	ACCTGC	1 cut(s)	502
CfoI	GCGC	1 cut(s)	374
Cfr10I	RCCGGY	1 cut(s)	447
Cfr13I	GGNCC	1 cut(s)	261
Csp6I	GTAC	1 cut(s)	237
CviAII	CATG	3 cut(s)	350, 407, 780
CviQI	GTAC	1 cut(s)	237
DdeI	CTNAG	3 cut(s)	6, 624, 680
DpnI	GATC	2 cut(s)	69, 540
DpnII	GATC	2 cut(s)	67, 538
Eam1104I	CTCTTC	1 cut(s)	555
EarI	CTCTTC	1 cut(s)	555
Eco130I	CCWWGG	1 cut(s)	716
Eco31I	GGTCTC	1 cut(s)	726
Eco57I	CTGAAG	1 cut(s)	555
EcoNI	CCTNNNNNAGG	1 cut(s)	459
EcoRI	GAATTC	1 cut(s)	775
EcoRII	CCWGG	1 cut(s)	454
EcoT14I	CCWWGG	1 cut(s)	716
ErhI	CCWWGG	1 cut(s)	716
Esp3I	CGTCTC	1 cut(s)	682
FaeI	CATG	3 cut(s)	353, 410, 783
FaqI	GGGAC	2 cut(s)	104, 824
FatI	CATG	3 cut(s)	349, 406, 779
Fnu4HI	GCNGC	6 cut(s)	45, 200, 264, 790, 844, 891
FokI	GGATG	1 cut(s)	404
Fsp4HI	GCNGC	6 cut(s)	45, 200, 264, 790, 844, 891
FspBI	CTAG	3 cut(s)	222, 461, 887
GlaI	GCGC	1 cut(s)	373
GluI	GCNGC	6 cut(s)	45, 200, 264, 790, 844, 891
GsaI	CCCAGC	1 cut(s)	337
GsuI	CTGGAG	1 cut(s)	714
HaeIII	GGCC	1 cut(s)	263
HapII	CCGG	3 cut(s)	275, 448, 869
HhaI	GCGC	1 cut(s)	374
Hin1II	CATG	3 cut(s)	353, 410, 783
Hin6I	GCGC	1 cut(s)	372
HinP1I	GCGC	1 cut(s)	372
HindIII	AAGCTT	1 cut(s)	186
HinfI	GANTC	7 cut(s)	4, 29, 230, 395, 524, 682, 812
HpaII	CCGG	3 cut(s)	275, 448, 869
HphI	GGTGA	2 cut(s)	718, 811
Hpy188I	TCNGA	6 cut(s)	28, 487, 523, 535, 687, 817
Hpy188III	TCNNGA	2 cut(s)	416, 623
HpyCH4III	ACNGT	1 cut(s)	255
HpyCH4V	TGCA	5 cut(s)	80, 202, 292, 511, 846
HpyF10VI	GCNNNNNNNGC	2 cut(s)	136, 890
HpyF3I	CTNAG	3 cut(s)	6, 624, 680
Hsp92II	CATG	3 cut(s)	353, 410, 783
HspAI	GCGC	1 cut(s)	372
KpnI	GGTACC	1 cut(s)	240
Kzo9I	GATC	2 cut(s)	67, 538
LmnI	GCTCC	1 cut(s)	699
Lsp1109I	GCAGC	4 cut(s)	31, 186, 830, 877
LweI	GCATC	4 cut(s)	67, 136, 376, 801
MaeI	CTAG	3 cut(s)	222, 461, 887
MaeIII	GTNAC	4 cut(s)	14, 380, 657, 706
MalI	GATC	2 cut(s)	69, 540
MboI	GATC	2 cut(s)	67, 538
MboII	GAAGA	4 cut(s)	303, 542, 548, 609
MflI	RGATCY	1 cut(s)	538
MhlI	GDGCHC	1 cut(s)	455
MluCI	AATT	4 cut(s)	21, 82, 193, 775
MlyI	GAGTC	4 cut(s)	404, 533, 691, 806
MmeI	TCCRAC	2 cut(s)	17, 655
MnlI	CCTC	9 cut(s)	105, 355, 458, 481, 588, 627, 735, 738, 801
MseI	TTAA	4 cut(s)	20, 192, 285, 432
MslI	CAYNNNNRTG	2 cut(s)	144, 797
MspI	CCGG	3 cut(s)	275, 448, 869
MspR9I	CCNGG	2 cut(s)	276, 456
Mva1269I	GAATGC	1 cut(s)	46
MvaI	CCWGG	1 cut(s)	456
MwoI	GCNNNNNNNGC	2 cut(s)	136, 890
NciI	CCSGG	1 cut(s)	276
NdeII	GATC	2 cut(s)	67, 538
NlaIII	CATG	3 cut(s)	353, 410, 783
NlaIV	GGNNCC	2 cut(s)	238, 452
NmuCI	GTSAC	2 cut(s)	14, 706
NspI	RCATGY	2 cut(s)	353, 410
PasI	CCCWGGG	1 cut(s)	455
PcsI	WCGNNNNNNNCGW	1 cut(s)	491
PctI	GAATGC	1 cut(s)	46
PfeI	GAWTC	2 cut(s)	29, 230
PflFI	GACNNNGTC	1 cut(s)	681
PkrI	GCNGC	6 cut(s)	46, 201, 265, 791, 845, 892
PleI	GAGTC	4 cut(s)	403, 532, 690, 806
PpsI	GAGTC	4 cut(s)	403, 532, 690, 806
PshAI	GACNNNNGTC	1 cut(s)	8
Psp6I	CCWGG	1 cut(s)	454
PspFI	CCCAGC	1 cut(s)	333
PspGI	CCWGG	1 cut(s)	454
PspN4I	GGNNCC	2 cut(s)	238, 452
PspPI	GGNCC	1 cut(s)	261
PsuI	RGATCY	1 cut(s)	538
PsyI	GACNNNGTC	1 cut(s)	681
RsaI	GTAC	1 cut(s)	238
RsaNI	GTAC	1 cut(s)	237
RseI	CAYNNNNRTG	2 cut(s)	144, 797
SaqAI	TTAA	4 cut(s)	20, 192, 285, 432
SatI	GCNGC	6 cut(s)	45, 200, 264, 790, 844, 891
Sau3AI	GATC	2 cut(s)	67, 538
Sau96I	GGNCC	1 cut(s)	261
SchI	GAGTC	4 cut(s)	404, 533, 691, 806
ScrFI	CCNGG	2 cut(s)	276, 456
SduI	GDGCHC	1 cut(s)	455
SfaNI	GCATC	4 cut(s)	67, 136, 376, 801
SmiMI	CAYNNNNRTG	2 cut(s)	144, 797
SmlI	CTYRAG	1 cut(s)	103
SmoI	CTYRAG	1 cut(s)	103
Sse9I	AATT	4 cut(s)	21, 82, 193, 775
SsiI	CCGC	3 cut(s)	264, 389, 789
SspI	AATATT	2 cut(s)	61, 754
SspMI	CTAG	3 cut(s)	222, 461, 887
StyD4I	CCNGG	2 cut(s)	274, 454
StyI	CCWWGG	1 cut(s)	716
TaaI	ACNGT	1 cut(s)	255
TaqI	TCGA	2 cut(s)	110, 415
TasI	AATT	4 cut(s)	21, 82, 193, 775
TauI	GCSGC	2 cut(s)	266, 792
TfiI	GAWTC	2 cut(s)	29, 230
Tru1I	TTAA	4 cut(s)	20, 192, 285, 432
Tru9I	TTAA	4 cut(s)	20, 192, 285, 432
TscAI	CASTG	1 cut(s)	19
TseFI	GTSAC	2 cut(s)	14, 706
TseI	GCWGC	4 cut(s)	44, 199, 843, 890
Tsp45I	GTSAC	2 cut(s)	14, 706
TspDTI	ATGAA	1 cut(s)	768
TspRI	CASTG	1 cut(s)	19
Tth111I	GACNNNGTC	1 cut(s)	681
XagI	CCTNNNNNAGG	1 cut(s)	459
XapI	RAATTY	2 cut(s)	82, 775
XceI	RCATGY	2 cut(s)	353, 410
XspI	CTAG	3 cut(s)	222, 461, 887

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