Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000004

Orthogroup ID

OG0005569

Physical Location & Seq

Genomic Coordinates Forward (+)

46123969 .. 46124946

Gene Structure 978 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug04G0288100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 978 bp

ATGTGGAGAGGTTTGTCAAGTACTCTTGCAACAAAGGCTGCTTTATTTGCTCGTAAGTTATCTTTGGATCCAATCTGTTCTCTATGCCAATGTTTCCCTGAAACTTTGGAACACATTCTTTTTGCTTGTCCATGGGCGAGAAAGACTTGGATGTTTCATCCAATTGGTTACCGTCCCCAGCTTCAACAACTTACAACTTTTGATACTTGGTTCTATCAGCTCTCTTTCCCAGTTTCCACAGAAAAATCTCAGCAACAAGAGGTTATGTCTCATATTAGTTTCTTACTTTGGTACATATGGAAACATAGGTGTCATTGTGTATTTAATTATAGTACTCCAGATTCTAGATTGGTTGCATCTACAGCTTTTGATGCCTCTCTAGAATTCCTGTCCTCAAAGAAGAAGATGGTTACTCAATCAGTCAAATCCTCTCTACGATCCAGACCACCACCAAAACCAAAATGGATTCCTCCTCTGCCTCAACAACTGAAGATAAATAGTGATGCTTCTTGGACTTCTCAGTCTGTAGGTGTGGCTGCTATCGCTAGAGATAGTACAGGACACGTGGTGGGGGGTGTTCACTCATTCAGTTCAGCCCCAACTCCTCTCTATGCTGAAGCTCTAGCCCTTTTGGCGGCTACTAATCTTGCTCATAGCCTTATTGATCAGCATATTCAAGTAGATTCGTTTCTGTTTGAATCTGATTCCTTTCAACTAGTTGATCTCCTTAATAATTCAGGTCCATCTTCAGATTGGGCTGTGATGCCCCTGATAGATTATATTCGAGATCGTACAGTTGCTCTCCCTTCTTATAGCTGGACTTGGTCTAGCAGGTTGGCTAATCAAGCGGCAGATCACTTAGCTTGTTTGGCTCGTAGGAGAATGTGTCCGGATGATTGGTGGATTCATCCTCCTTCCTCCTTATCTTACTTCCTTCTCTTAGATGCTGTTTCTACTCCAGATTTCATTTCAGTTTAG

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

Med25_VWA

Protein Analysis

325

Amino Acids

36.71

Weight (kDa)

8.11

Isoelectric Point (pI)

50.37

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-RVT	PF13966	1 - 50	8.8e-09	zinc-binding in reverse transcriptase
RVT_3	PF13456	166 - 288	1.4e-13	Reverse transcriptase-like

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

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0005569)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G25540 AT1G25540
fragaria_vesca	FvH4_4g27961 FvH4_4g27961 FvH4_4g27961 FvH4_4g27961 FvH4_4g27961 FvH4_4g27961 FvH4_4g27961 FvH4_4g27961
malus_domestica	MD16G1046800.v1.1 MD16G1047200.v1.1
prunus_persica	Prupe.1G306600_v2.0.a1 Prupe.1G306600_v2.0.a1
pyrus_communis	pycom16g04110
rosa_chinensis	RchiOBHm_Chr4g0435671
rosa_laevigata	RLG00000006568
rosa_multiflora	Rmu_sc0000051.1_g000012
rosa_roxburghii	Rroxscaffold_5G00376880
rosa_rugosa	Rorug04G0287900 Rorug04G0288000 Rorug04G0288100
rosa_samantha	Rh2AG659100 Rh4AG343000 Rh4BG351300 Rh4CG365900 Rh4DG345600
rosa_wichuraiana	Rw4G029940

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	520
Acc36I	ACCTGC	1 cut(s)	822
AccIII	TCCGGA	1 cut(s)	889
AciI	CCGC	2 cut(s)	635, 848
AclWI	GGATC	3 cut(s)	62, 75, 432
AcsI	RAATTY	1 cut(s)	383
AcuI	CTGAAG	3 cut(s)	509, 636, 732
AcvI	CACGTG	1 cut(s)	565
AdeI	CACNNNGTG	1 cut(s)	568
AfaI	GTAC	5 cut(s)	22, 293, 334, 556, 793
AfiI	CCNNNNNNNGG	1 cut(s)	634
AflIII	ACRYGT	1 cut(s)	562
AgsI	TTSAA	4 cut(s)	185, 677, 698, 713
AhlI	ACTAGT	1 cut(s)	715
AluBI	AGCT	6 cut(s)	181, 220, 365, 620, 816, 863
AluI	AGCT	6 cut(s)	181, 220, 365, 620, 816, 863
Alw26I	GTCTC	1 cut(s)	273
AlwI	GGATC	3 cut(s)	62, 75, 432
Aor13HI	TCCGGA	1 cut(s)	889
ApeKI	GCWGC	2 cut(s)	38, 536
ApoI	RAATTY	1 cut(s)	383
Asp700I	GAANNNNTTC	1 cut(s)	114
AspS9I	GGNCC	1 cut(s)	740
AvaII	GGWCC	1 cut(s)	740
BamHI	GGATCC	1 cut(s)	67
BbrPI	CACGTG	1 cut(s)	565
BbvI	GCAGC	2 cut(s)	25, 523
BccI	CCATC	2 cut(s)	400, 751
BclI	TGATCA	1 cut(s)	664
BcoDI	GTCTC	1 cut(s)	273
BcuI	ACTAGT	1 cut(s)	715
BfaI	CTAG	6 cut(s)	345, 380, 546, 623, 716, 828
BfmI	CTRYAG	2 cut(s)	360, 525
BfuAI	ACCTGC	1 cut(s)	822
BglI	GCCNNNNNGGC	1 cut(s)	632
BisI	GCNGC	4 cut(s)	39, 537, 636, 849
BlsI	GCNGC	4 cut(s)	40, 538, 637, 850
BmcAI	AGTACT	2 cut(s)	22, 334
Bme18I	GGWCC	1 cut(s)	740
BmgT120I	GGNCC	1 cut(s)	740
BmiI	GGNNCC	1 cut(s)	69
BmrI	ACTGGG	1 cut(s)	224
BmsI	GCATC	5 cut(s)	361, 365, 493, 753, 934
BmuI	ACTGGG	1 cut(s)	224
BpmI	CTGGAG	2 cut(s)	321, 942
BsaAI	YACGTR	1 cut(s)	565
BsaJI	CCNNGG	1 cut(s)	131
BsaWI	WCCGGW	1 cut(s)	889
BsaXI	ACNNNNNCTCC	2 cut(s)	871, 901
Bsc4I	CCNNNNNNNGG	1 cut(s)	634
Bse1I	ACTGG	1 cut(s)	230
BseAI	TCCGGA	1 cut(s)	889
BseDI	CCNNGG	1 cut(s)	131
BseGI	GGATG	4 cut(s)	156, 157, 898, 907
BseLI	CCNNNNNNNGG	1 cut(s)	634
BseMII	CTCAG	2 cut(s)	263, 533
BseNI	ACTGG	1 cut(s)	230
BseRI	GAGGAG	2 cut(s)	462, 594
BseXI	GCAGC	2 cut(s)	25, 523
BseYI	CCCAGC	1 cut(s)	177
BsiSI	CCGG	1 cut(s)	890
BslFI	GGGAC	1 cut(s)	159
BslI	CCNNNNNNNGG	1 cut(s)	634
BsmAI	GTCTC	1 cut(s)	273
BsmFI	GGGAC	1 cut(s)	159
Bsp13I	TCCGGA	1 cut(s)	889
Bsp143I	GATC	6 cut(s)	67, 437, 664, 721, 787, 853
Bsp19I	CCATGG	1 cut(s)	131
BspACI	CCGC	2 cut(s)	635, 848
BspCNI	CTCAG	2 cut(s)	262, 532
BspEI	TCCGGA	1 cut(s)	889
BspLI	GGNNCC	1 cut(s)	69
BspMI	ACCTGC	1 cut(s)	822
BspPI	GGATC	3 cut(s)	62, 75, 432
BsrI	ACTGG	1 cut(s)	230
BssECI	CCNNGG	1 cut(s)	131
BssMI	GATC	6 cut(s)	67, 437, 664, 721, 787, 853
BssT1I	CCWWGG	1 cut(s)	131
Bst4CI	ACNGT	2 cut(s)	173, 796
BstBAI	YACGTR	1 cut(s)	565
BstDEI	CTNAG	4 cut(s)	249, 519, 859, 940
BstDSI	CCRYGG	1 cut(s)	131
BstEII	GGTNACC	1 cut(s)	167
BstF5I	GGATG	4 cut(s)	156, 157, 898, 907
BstKTI	GATC	6 cut(s)	70, 440, 667, 724, 790, 856
BstMAI	GTCTC	1 cut(s)	273
BstMBI	GATC	6 cut(s)	67, 437, 664, 721, 787, 853
BstMWI	GCNNNNNNNGC	8 cut(s)	35, 47, 362, 371, 542, 632, 845, 869
BstPI	GGTNACC	1 cut(s)	167
BstSFI	CTRYAG	2 cut(s)	360, 525
BstV1I	GCAGC	2 cut(s)	25, 523
BstX2I	RGATCY	1 cut(s)	67
BstYI	RGATCY	1 cut(s)	67
BtgI	CCRYGG	1 cut(s)	131
BtsCI	GGATG	4 cut(s)	156, 157, 898, 907
BveI	ACCTGC	1 cut(s)	822
Cfr13I	GGNCC	1 cut(s)	740
Csp6I	GTAC	5 cut(s)	21, 292, 333, 555, 792
CviAII	CATG	1 cut(s)	132
CviQI	GTAC	5 cut(s)	21, 292, 333, 555, 792
DdeI	CTNAG	4 cut(s)	249, 519, 859, 940
DpnI	GATC	6 cut(s)	69, 439, 666, 723, 789, 855
DpnII	GATC	6 cut(s)	67, 437, 664, 721, 787, 853
DraIII	CACNNNGTG	1 cut(s)	568
DrdI	GACNNNNNNGTC	1 cut(s)	520
DseDI	GACNNNNNNGTC	1 cut(s)	520
Eco130I	CCWWGG	1 cut(s)	131
Eco47I	GGWCC	1 cut(s)	740
Eco57I	CTGAAG	3 cut(s)	509, 636, 732
Eco72I	CACGTG	1 cut(s)	565
Eco91I	GGTNACC	1 cut(s)	167
EcoO65I	GGTNACC	1 cut(s)	167
EcoRI	GAATTC	1 cut(s)	383
EcoT14I	CCWWGG	1 cut(s)	131
ErhI	CCWWGG	1 cut(s)	131
FaeI	CATG	1 cut(s)	135
FaqI	GGGAC	1 cut(s)	159
FatI	CATG	1 cut(s)	131
FauNDI	CATATG	1 cut(s)	296
FbaI	TGATCA	1 cut(s)	664
Fnu4HI	GCNGC	4 cut(s)	39, 537, 636, 849
FokI	GGATG	4 cut(s)	144, 163, 894, 905
Fsp4HI	GCNGC	4 cut(s)	39, 537, 636, 849
FspBI	CTAG	6 cut(s)	345, 380, 546, 623, 716, 828
GluI	GCNGC	4 cut(s)	39, 537, 636, 849
GsaI	CCCAGC	1 cut(s)	181
GsuI	CTGGAG	2 cut(s)	321, 942
HapII	CCGG	1 cut(s)	890
Hin1II	CATG	1 cut(s)	135
HinfI	GANTC	6 cut(s)	341, 466, 683, 698, 704, 904
HpaII	CCGG	1 cut(s)	890
Hpy166II	GTNNAC	1 cut(s)	580
Hpy188I	TCNGA	2 cut(s)	703, 751
Hpy188III	TCNNGA	7 cut(s)	338, 345, 380, 441, 785, 890, 959
Hpy8I	GTNNAC	1 cut(s)	580
HpyAV	CCTTC	3 cut(s)	816, 924, 944
HpyCH4III	ACNGT	2 cut(s)	173, 796
HpyCH4IV	ACGT	1 cut(s)	564
HpyCH4V	TGCA	2 cut(s)	29, 356
HpyF10VI	GCNNNNNNNGC	8 cut(s)	35, 47, 362, 371, 542, 632, 845, 869
HpyF3I	CTNAG	4 cut(s)	249, 519, 859, 940
HpySE526I	ACGT	1 cut(s)	564
Hsp92II	CATG	1 cut(s)	135
Kpn2I	TCCGGA	1 cut(s)	889
Ksp22I	TGATCA	1 cut(s)	664
Kzo9I	GATC	6 cut(s)	67, 437, 664, 721, 787, 853
Lsp1109I	GCAGC	2 cut(s)	25, 523
LweI	GCATC	5 cut(s)	361, 365, 493, 753, 934
MaeI	CTAG	6 cut(s)	345, 380, 546, 623, 716, 828
MaeII	ACGT	1 cut(s)	564
MaeIII	GTNAC	2 cut(s)	167, 409
MalI	GATC	6 cut(s)	69, 439, 666, 723, 789, 855
MboI	GATC	6 cut(s)	67, 437, 664, 721, 787, 853
MboII	GAAGA	4 cut(s)	412, 415, 502, 738
MfeI	CAATTG	1 cut(s)	162
MflI	RGATCY	1 cut(s)	67
MluCI	AATT	4 cut(s)	162, 325, 383, 733
MroI	TCCGGA	1 cut(s)	889
MroXI	GAANNNNTTC	1 cut(s)	114
MseI	TTAA	2 cut(s)	324, 729
MspI	CCGG	1 cut(s)	890
MunI	CAATTG	1 cut(s)	162
MwoI	GCNNNNNNNGC	8 cut(s)	35, 47, 362, 371, 542, 632, 845, 869
NcoI	CCATGG	1 cut(s)	131
NdeI	CATATG	1 cut(s)	296
NdeII	GATC	6 cut(s)	67, 437, 664, 721, 787, 853
NlaIII	CATG	1 cut(s)	135
NlaIV	GGNNCC	1 cut(s)	69
PdmI	GAANNNNTTC	1 cut(s)	114
PfeI	GAWTC	6 cut(s)	341, 466, 683, 698, 704, 904
PflFI	GACNNNGTC	1 cut(s)	823
PkrI	GCNGC	4 cut(s)	40, 538, 637, 850
PmaCI	CACGTG	1 cut(s)	565
PmlI	CACGTG	1 cut(s)	565
Ppu21I	YACGTR	1 cut(s)	565
PspCI	CACGTG	1 cut(s)	565
PspEI	GGTNACC	1 cut(s)	167
PspFI	CCCAGC	1 cut(s)	177
PspN4I	GGNNCC	1 cut(s)	69
PspPI	GGNCC	1 cut(s)	740
PsuI	RGATCY	1 cut(s)	67
PsyI	GACNNNGTC	1 cut(s)	823
RsaI	GTAC	5 cut(s)	22, 293, 334, 556, 793
RsaNI	GTAC	5 cut(s)	21, 292, 333, 555, 792
SaqAI	TTAA	2 cut(s)	324, 729
SatI	GCNGC	4 cut(s)	39, 537, 636, 849
Sau3AI	GATC	6 cut(s)	67, 437, 664, 721, 787, 853
Sau96I	GGNCC	1 cut(s)	740
ScaI	AGTACT	2 cut(s)	22, 334
SfaNI	GCATC	5 cut(s)	361, 365, 493, 753, 934
SfcI	CTRYAG	2 cut(s)	360, 525
SinI	GGWCC	1 cut(s)	740
SpeI	ACTAGT	1 cut(s)	715
Sse9I	AATT	4 cut(s)	162, 325, 383, 733
SsiI	CCGC	2 cut(s)	635, 848
SspMI	CTAG	6 cut(s)	345, 380, 546, 623, 716, 828
StyI	CCWWGG	1 cut(s)	131
TaaI	ACNGT	2 cut(s)	173, 796
TaiI	ACGT	1 cut(s)	567
TaqI	TCGA	1 cut(s)	784
TasI	AATT	4 cut(s)	162, 325, 383, 733
TatI	WGTACW	3 cut(s)	20, 332, 554
TauI	GCSGC	2 cut(s)	638, 851
TfiI	GAWTC	6 cut(s)	341, 466, 683, 698, 704, 904
Tru1I	TTAA	2 cut(s)	324, 729
Tru9I	TTAA	2 cut(s)	324, 729
TseI	GCWGC	2 cut(s)	38, 536
TspDTI	ATGAA	3 cut(s)	146, 896, 955
Tth111I	GACNNNGTC	1 cut(s)	823
VpaK11BI	GGWCC	1 cut(s)	740
XapI	RAATTY	1 cut(s)	383
XbaI	TCTAGA	2 cut(s)	344, 379
XcmI	CCANNNNNNNNNTGG	2 cut(s)	459, 750
XmnI	GAANNNNTTC	1 cut(s)	114
XspI	CTAG	6 cut(s)	345, 380, 546, 623, 716, 828
ZrmI	AGTACT	2 cut(s)	22, 334

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