Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000002

Orthogroup ID

OG0001600

Physical Location & Seq

Genomic Coordinates Reverse (-)

54595758 .. 54597696

Gene Structure 1939 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug02G0424500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1293 bp

ATGGTGGAGAACGATTATGAGTGGAATGTTCCACTTTTGGAAGCTTTATTTACACCACTGGAAGTTGGCATAATTGCAAGTATCCCTCTAAGCCTTAGAGGAGCAAATGACAGCTTGATATGGCACTATGATAAGAGAGGAAACTATGGAGTGAAAAGTGGATATCATTTGGCCCGCCTTGATGATGGTAGATCTGACCGGGCTTCTAGTTCAAATGGGTCTTATGGGATTAATGCTACTTACTGGAAGATAATTTGGGGGGCCAACATCCCACCTAAAGTGCGTGTGTTCGTATGGAGACTACTCAGAGGCATTTTACCTACAAGAAGAGCTCTCTCCCATAAGGTTAGTCTTCTTGATAGTAATTGTCTTTTTTGTAATCATGCATTAGAAGATGGATTACACTTATTCAGAGATTGTGATGTTACCACATGCTTTTGGGTGTGTACCAAATTGGGTCTTTTGGCCAAGAAGGTGGAGGCTTCATGTGTGGAGGATTGGGTGTTGAACGTCATTGATAAATTGGATGGTAACCAACGTTGTGCTTTTTTCATGGCACTCTGGGTCATATGGTCTGAAAGAAATAATGTCTTGTGGAACGGAAATTTCTTCTGTGCTTCTAATGCTGCTCAATGGGCTAGTAAATTTCTTGAGGAATATCAGCAACTTCATGTGCATGGAAATGCGAAAGGTAGAAGGGAAAAGTCCAAATGGCAGAACCCCCCTAGTGGGCGTCTGAAAGTGAATGTGGATGGGAGTTACCGGGCTGATCATGGTGATGGTGGAGTGGGAGTTGTGATACGTGATGAAAATGGTATGTGTTTGTCAGCTCTGGCTCGATATTTCCCACATGCTTCATCTGCTCTACATATGGAGGTTGAAGCTTGTAGGGCTGGGCTTTTATTGGCAATCCATCAGGACATGACCGTTATTGATATTGAGAGCGATTGTTCCCTTGCTGTCACTGCTATACAGCGTGAGGTGGAAGATAGATCTGACATTGGGCGAATTATCGATGATTGTAAGTCATATTTGACATCTTTTCACTCAAGTCAGGTTAGCCACATCTTCCGTGAAGCAAACGGTGTGGCCAACAGGTTAGCGCACCTTGCTAGTTTTAATTATATTTCTGATGTTTGGTTAGATGAGACTCCTGTTATTATTCGGGATGTTCTCTATGAGGATGTTTGTAATCTTTCTAATGTCGCTCGGGGTTCAGGTATTATGTCCCCCCCGTTGCAAAGTTTTAATTCAATAAATGGAATCGGGCGTGGGGCTGAGCCTCCCAGCTAG

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

TPR_16 TPR_19 TPR_6 TPR_7 TPR_8

Protein Analysis

430

Amino Acids

48.06

Weight (kDa)

6.16

Isoelectric Point (pI)

31.83

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-RVT	PF13966	79 - 147	1.7e-15	zinc-binding in reverse transcriptase
RVT_3	PF13456	249 - 370	1.7e-25	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

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Orthologous Genes (Group: OG0001600)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G17680 AT1G17680 AT1G17680
fragaria_vesca	FvH4_2g25610 FvH4_6g37900 FvH4_6g37900 FvH4_6g37900 FvH4_6g37900 FvH4_6g37900 FvH4_6g38030 FvH4_6g38030 FvH4_6g38030 FvH4_6g38030 FvH4_6g38030 FvH4_6g38050
malus_domestica	MD09G1155000.v1.1 MD17G1140900.v1.1 MD17G1141000.v1.1 MD17G1141100.v1.1
prunus_persica	Prupe.8G070000_v2.0.a1
pyrus_communis	pycom09g07370 pycom09g07380 pycom17g13410 pycom17g13440
rosa_chinensis	RchiOBHm_Chr2g0151071 RchiOBHm_Chr2g0151101 RchiOBHm_Chr6g0293861
rosa_laevigata	RLG00000011917 RLG00000020527 RLG00000020529
rosa_multiflora	Rmu_co8508109.1_g000001 Rmu_ssc0000470.1_g000002
rosa_roxburghii	Rroxscaffold_2G00096730 Rroxscaffold_7G00173850
rosa_rugosa	Rorug02G0424200 Rorug02G0424300 Rorug02G0424400 Rorug02G0424500 Rorug06G0238400
rosa_samantha	Rh2AG484900 Rh2BG497200 Rh2CG471000 Rh2DG508100 Rh6AG352000 Rh6BG358800 Rh6CG366100 Rh6CG366200 Rh6DG352800
rosa_wichuraiana	Rw2G039740 Rw6G030630

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	1 cut(s)	175
AclI	AACGTT	1 cut(s)	538
AcoI	YGGCCR	2 cut(s)	465, 1089
AcsI	RAATTY	2 cut(s)	604, 644
AcyI	GRCGYC	1 cut(s)	733
AfaI	GTAC	1 cut(s)	448
AfiI	CCNNNNNNNGG	2 cut(s)	728, 729
AgsI	TTSAA	4 cut(s)	213, 508, 881, 1254
AluBI	AGCT	6 cut(s)	44, 114, 332, 830, 884, 1290
AluI	AGCT	6 cut(s)	44, 114, 332, 830, 884, 1290
Alw21I	GWGCWC	1 cut(s)	334
Alw26I	GTCTC	2 cut(s)	292, 1142
Ama87I	CYCGRG	1 cut(s)	1209
AoxI	GGCC	4 cut(s)	171, 261, 465, 1089
ApeKI	GCWGC	1 cut(s)	626
ApoI	RAATTY	2 cut(s)	604, 644
AseI	ATTAAT	1 cut(s)	231
AspLEI	GCGC	1 cut(s)	1105
AspS9I	GGNCC	2 cut(s)	172, 261
AsuC2I	CCSGG	2 cut(s)	200, 764
AsuHPI	GGTGA	1 cut(s)	788
AvaI	CYCGRG	1 cut(s)	1209
BalI	TGGCCA	2 cut(s)	467, 1091
BanII	GRGCYC	1 cut(s)	334
BarI	GAAGNNNNNNTAC	2 cut(s)	384, 416
BbsI	GAAGAC	1 cut(s)	344
Bbv12I	GWGCWC	1 cut(s)	334
BbvI	GCAGC	1 cut(s)	613
BccI	CCATC	6 cut(s)	179, 389, 521, 746, 773, 921
BciVI	GTATCC	1 cut(s)	92
BclI	TGATCA	1 cut(s)	769
BcnI	CCSGG	2 cut(s)	200, 764
BcoDI	GTCTC	2 cut(s)	292, 1142
BfaI	CTAG	5 cut(s)	207, 639, 726, 1113, 1291
BfuI	GTATCC	1 cut(s)	92
BglII	AGATCT	2 cut(s)	191, 992
BisI	GCNGC	1 cut(s)	627
BlpI	GCTNAGC	1 cut(s)	1278
BlsI	GCNGC	1 cut(s)	628
Bme1390I	CCNGG	2 cut(s)	200, 764
BmeT110I	CYCGRG	1 cut(s)	1209
BmgT120I	GGNCC	2 cut(s)	172, 261
BmiI	GGNNCC	1 cut(s)	262
BmrFI	CCNGG	2 cut(s)	200, 764
BpiI	GAAGAC	1 cut(s)	344
Bpu1102I	GCTNAGC	1 cut(s)	1278
BpuEI	CTTGAG	2 cut(s)	671, 1033
BpuMI	CCSGG	2 cut(s)	200, 764
Bsa29I	ATCGAT	1 cut(s)	1014
BsaAI	YACGTR	1 cut(s)	803
BsaHI	GRCGYC	1 cut(s)	733
BsaXI	ACNNNNNCTCC	2 cut(s)	777, 807
Bsc4I	CCNNNNNNNGG	2 cut(s)	728, 729
Bse1I	ACTGG	2 cut(s)	63, 248
BseCI	ATCGAT	1 cut(s)	1014
BseGI	GGATG	5 cut(s)	267, 532, 757, 1174, 1189
BseLI	CCNNNNNNNGG	2 cut(s)	728, 729
BseMII	CTCAG	2 cut(s)	319, 1269
BseNI	ACTGG	2 cut(s)	63, 248
BseRI	GAGGAG	1 cut(s)	114
BseXI	GCAGC	1 cut(s)	613
BseYI	CCCAGC	2 cut(s)	893, 1286
BshFI	GGCC	4 cut(s)	173, 263, 467, 1091
BshVI	ATCGAT	1 cut(s)	1014
BsiHKAI	GWGCWC	1 cut(s)	334
BsiHKCI	CYCGRG	1 cut(s)	1209
BsiSI	CCGG	2 cut(s)	199, 763
BslFI	GGGAC	1 cut(s)	1213
BslI	CCNNNNNNNGG	2 cut(s)	728, 729
BsmAI	GTCTC	2 cut(s)	292, 1142
BsmFI	GGGAC	1 cut(s)	1213
BsnI	GGCC	4 cut(s)	173, 263, 467, 1091
BsoBI	CYCGRG	1 cut(s)	1209
Bsp1286I	GDGCHC	1 cut(s)	334
Bsp143I	GATC	3 cut(s)	191, 769, 992
Bsp1720I	GCTNAGC	1 cut(s)	1278
BspACI	CCGC	1 cut(s)	175
BspANI	GGCC	4 cut(s)	173, 263, 467, 1091
BspCNI	CTCAG	2 cut(s)	318, 1270
BspDI	ATCGAT	1 cut(s)	1014
BspLI	GGNNCC	1 cut(s)	262
BspQI	GCTCTTC	1 cut(s)	322
BsrI	ACTGG	2 cut(s)	63, 248
BssMI	GATC	3 cut(s)	191, 769, 992
BssNI	GRCGYC	1 cut(s)	733
Bst4CI	ACNGT	2 cut(s)	928, 1085
Bst6I	CTCTTC	1 cut(s)	322
BstACI	GRCGYC	1 cut(s)	733
BstBAI	YACGTR	1 cut(s)	803
BstC8I	GCNNGC	1 cut(s)	175
BstDEI	CTNAG	4 cut(s)	89, 95, 305, 1278
BstEII	GGTNACC	1 cut(s)	530
BstF5I	GGATG	5 cut(s)	267, 532, 757, 1174, 1189
BstHHI	GCGC	1 cut(s)	1105
BstKTI	GATC	3 cut(s)	194, 772, 995
BstMAI	GTCTC	2 cut(s)	292, 1142
BstMBI	GATC	3 cut(s)	191, 769, 992
BstMWI	GCNNNNNNNGC	6 cut(s)	623, 635, 860, 890, 965, 1109
BstNSI	RCATGY	2 cut(s)	435, 854
BstPI	GGTNACC	1 cut(s)	530
BstSCI	CCNGG	2 cut(s)	198, 762
BstV1I	GCAGC	1 cut(s)	613
BstV2I	GAAGAC	1 cut(s)	344
BstX2I	RGATCY	2 cut(s)	191, 992
BstXI	CCANNNNNNTGG	1 cut(s)	475
BstYI	RGATCY	2 cut(s)	191, 992
Bsu15I	ATCGAT	1 cut(s)	1014
BsuI	GTATCC	1 cut(s)	92
BsuRI	GGCC	4 cut(s)	173, 263, 467, 1091
BsuTUI	ATCGAT	1 cut(s)	1014
BtsCI	GGATG	5 cut(s)	267, 532, 757, 1174, 1189
BtsI	GCAGTG	1 cut(s)	963
BtsIMutI	CAGTG	2 cut(s)	56, 963
Cac8I	GCNNGC	1 cut(s)	175
CfoI	GCGC	1 cut(s)	1105
Cfr13I	GGNCC	2 cut(s)	172, 261
ClaI	ATCGAT	1 cut(s)	1014
CseI	GACGC	1 cut(s)	722
Csp6I	GTAC	1 cut(s)	447
CspCI	CAANNNNNGTGG	2 cut(s)	1068, 1103
CviAII	CATG	9 cut(s)	383, 432, 486, 553, 671, 677, 773, 851, 922
CviQI	GTAC	1 cut(s)	447
DdeI	CTNAG	4 cut(s)	89, 95, 305, 1278
DpnI	GATC	3 cut(s)	193, 771, 994
DpnII	GATC	3 cut(s)	191, 769, 992
EaeI	YGGCCR	2 cut(s)	465, 1089
Eam1104I	CTCTTC	1 cut(s)	322
EarI	CTCTTC	1 cut(s)	322
Ecl136II	GAGCTC	1 cut(s)	332
Eco24I	GRGCYC	1 cut(s)	334
Eco32I	GATATC	1 cut(s)	164
Eco53kI	GAGCTC	1 cut(s)	332
Eco88I	CYCGRG	1 cut(s)	1209
Eco91I	GGTNACC	1 cut(s)	530
EcoICRI	GAGCTC	1 cut(s)	332
EcoO65I	GGTNACC	1 cut(s)	530
EcoRV	GATATC	1 cut(s)	164
EcoT22I	ATGCAT	1 cut(s)	388
EcoT38I	GRGCYC	1 cut(s)	334
FaeI	CATG	9 cut(s)	386, 435, 489, 556, 674, 680, 776, 854, 925
FaqI	GGGAC	1 cut(s)	1213
FatI	CATG	9 cut(s)	382, 431, 485, 552, 670, 676, 772, 850, 921
FauI	CCCGC	1 cut(s)	182
FauNDI	CATATG	2 cut(s)	569, 870
FbaI	TGATCA	1 cut(s)	769
Fnu4HI	GCNGC	1 cut(s)	627
FokI	GGATG	5 cut(s)	254, 539, 764, 1181, 1196
FriOI	GRGCYC	1 cut(s)	334
Fsp4HI	GCNGC	1 cut(s)	627
FspBI	CTAG	5 cut(s)	207, 639, 726, 1113, 1291
GlaI	GCGC	1 cut(s)	1104
GluI	GCNGC	1 cut(s)	627
GsaI	CCCAGC	2 cut(s)	897, 1290
HaeIII	GGCC	4 cut(s)	173, 263, 467, 1091
HapII	CCGG	2 cut(s)	199, 763
HgaI	GACGC	1 cut(s)	722
HhaI	GCGC	1 cut(s)	1105
Hin1I	GRCGYC	1 cut(s)	733
Hin1II	CATG	9 cut(s)	386, 435, 489, 556, 674, 680, 776, 854, 925
Hin6I	GCGC	1 cut(s)	1103
HinP1I	GCGC	1 cut(s)	1103
HindIII	AAGCTT	2 cut(s)	42, 882
HinfI	GANTC	2 cut(s)	1150, 1263
HpaII	CCGG	2 cut(s)	199, 763
HphI	GGTGA	1 cut(s)	788
Hpy166II	GTNNAC	1 cut(s)	447
Hpy188I	TCNGA	7 cut(s)	196, 308, 413, 577, 738, 997, 1132
Hpy188III	TCNNGA	4 cut(s)	356, 650, 917, 1166
Hpy8I	GTNNAC	1 cut(s)	447
HpyAV	CCTTC	2 cut(s)	466, 690
HpyCH4III	ACNGT	2 cut(s)	928, 1085
HpyCH4IV	ACGT	3 cut(s)	510, 538, 802
HpyCH4V	TGCA	4 cut(s)	77, 386, 676, 1240
HpyF10VI	GCNNNNNNNGC	6 cut(s)	623, 635, 860, 890, 965, 1109
HpyF3I	CTNAG	4 cut(s)	89, 95, 305, 1278
HpySE526I	ACGT	3 cut(s)	510, 538, 802
Hsp92I	GRCGYC	1 cut(s)	733
Hsp92II	CATG	9 cut(s)	386, 435, 489, 556, 674, 680, 776, 854, 925
HspAI	GCGC	1 cut(s)	1103
Ksp22I	TGATCA	1 cut(s)	769
Kzo9I	GATC	3 cut(s)	191, 769, 992
LguI	GCTCTTC	1 cut(s)	322
LmnI	GCTCC	1 cut(s)	101
Lsp1109I	GCAGC	1 cut(s)	613
MaeI	CTAG	5 cut(s)	207, 639, 726, 1113, 1291
MaeII	ACGT	3 cut(s)	510, 538, 802
MaeIII	GTNAC	4 cut(s)	424, 530, 758, 961
MalI	GATC	3 cut(s)	193, 771, 994
MboI	GATC	3 cut(s)	191, 769, 992
MboII	GAAGA	7 cut(s)	259, 339, 344, 404, 601, 998, 1060
MflI	RGATCY	2 cut(s)	191, 992
MhlI	GDGCHC	1 cut(s)	334
MlsI	TGGCCA	2 cut(s)	467, 1091
MluNI	TGGCCA	2 cut(s)	467, 1091
MlyI	GAGTC	1 cut(s)	1144
Mox20I	TGGCCA	2 cut(s)	467, 1091
Mph1103I	ATGCAT	1 cut(s)	388
MscI	TGGCCA	2 cut(s)	467, 1091
MseI	TTAA	3 cut(s)	231, 1119, 1248
MslI	CAYNNNNRTG	3 cut(s)	675, 681, 777
Msp20I	TGGCCA	2 cut(s)	467, 1091
MspI	CCGG	2 cut(s)	199, 763
MspR9I	CCNGG	2 cut(s)	200, 764
MwoI	GCNNNNNNNGC	6 cut(s)	623, 635, 860, 890, 965, 1109
NciI	CCSGG	2 cut(s)	200, 764
NdeI	CATATG	2 cut(s)	569, 870
NdeII	GATC	3 cut(s)	191, 769, 992
NlaIII	CATG	9 cut(s)	386, 435, 489, 556, 674, 680, 776, 854, 925
NlaIV	GGNNCC	1 cut(s)	262
NmuCI	GTSAC	1 cut(s)	961
NsiI	ATGCAT	1 cut(s)	388
NspI	RCATGY	2 cut(s)	435, 854
PciSI	GCTCTTC	1 cut(s)	322
PfeI	GAWTC	1 cut(s)	1263
PkrI	GCNGC	1 cut(s)	628
PleI	GAGTC	1 cut(s)	1144
PpsI	GAGTC	1 cut(s)	1144
Ppu21I	YACGTR	1 cut(s)	803
PshBI	ATTAAT	1 cut(s)	231
Psp124BI	GAGCTC	1 cut(s)	334
Psp1406I	AACGTT	1 cut(s)	538
PspEI	GGTNACC	1 cut(s)	530
PspFI	CCCAGC	2 cut(s)	893, 1286
PspN4I	GGNNCC	1 cut(s)	262
PspPI	GGNCC	2 cut(s)	172, 261
PsuI	RGATCY	2 cut(s)	191, 992
RsaI	GTAC	1 cut(s)	448
RsaNI	GTAC	1 cut(s)	447
RseI	CAYNNNNRTG	3 cut(s)	675, 681, 777
SacI	GAGCTC	1 cut(s)	334
SapI	GCTCTTC	1 cut(s)	322
SaqAI	TTAA	3 cut(s)	231, 1119, 1248
SatI	GCNGC	1 cut(s)	627
Sau3AI	GATC	3 cut(s)	191, 769, 992
Sau96I	GGNCC	2 cut(s)	172, 261
SchI	GAGTC	1 cut(s)	1144
ScrFI	CCNGG	2 cut(s)	200, 764
SduI	GDGCHC	1 cut(s)	334
SmiMI	CAYNNNNRTG	3 cut(s)	675, 681, 777
SmlI	CTYRAG	2 cut(s)	650, 1048
SmoI	CTYRAG	2 cut(s)	650, 1048
SsiI	CCGC	1 cut(s)	175
SspMI	CTAG	5 cut(s)	207, 639, 726, 1113, 1291
SstI	GAGCTC	1 cut(s)	334
StyD4I	CCNGG	2 cut(s)	198, 762
TaaI	ACNGT	2 cut(s)	928, 1085
TaiI	ACGT	3 cut(s)	513, 541, 805
TaqI	TCGA	2 cut(s)	838, 1014
TfiI	GAWTC	1 cut(s)	1263
Tru1I	TTAA	3 cut(s)	231, 1119, 1248
Tru9I	TTAA	3 cut(s)	231, 1119, 1248
TscAI	CASTG	2 cut(s)	63, 970
TseFI	GTSAC	1 cut(s)	961
TseI	GCWGC	1 cut(s)	626
Tsp45I	GTSAC	1 cut(s)	961
TspDTI	ATGAA	5 cut(s)	474, 541, 659, 822, 846
TspGWI	ACGGA	2 cut(s)	615, 1061
TspRI	CASTG	2 cut(s)	63, 970
VspI	ATTAAT	1 cut(s)	231
XapI	RAATTY	2 cut(s)	604, 644
XceI	RCATGY	2 cut(s)	435, 854
XspI	CTAG	5 cut(s)	207, 639, 726, 1113, 1291
Zsp2I	ATGCAT	1 cut(s)	388

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