Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5C

Orthogroup ID

OG0003818

Physical Location & Seq

Genomic Coordinates Reverse (-)

14284689 .. 14288772

Gene Structure 4084 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5CG153800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1173 bp

ATGGAGGGTCAGGTATTATTTGGTGATGAGATTCCTGTGAATTTGCCTAGAGAGGAAGACGAAGAAGAGTTTCGAAGTTGTTGCGAAGATGATGAGGTTTGGAAGGAGAACGATGAACCTGTGAAGGTGGAGTCAAAAGATGATCTTGATGAGTTTTCGGTGAACATGTTCTTCAAGGGCATTTCTGTAACTGGGTTTGGGGACTCGAGTGTTGGGCTTTCTGGTATTGGAGTTGTTATGGAAAGAGCAGCCCATGTTCCTGTAATTCAGGTGCAGAAAAAGCTTGATTTTTATGTGGAGGAGCCTGTGGCTGACTATCTAGCTCTGATGGATGGTTTAGTGGAAGCTGTGCAGAATAATGTTCGCCGGGTGTACGCATTCACAGATTCTGAGCTTCTCTATGACCAGGTATCAAATGAGGAGAAACTTGATATTCCCCTCCTTGTAGCACTGAGGGAAAGGATCCTAGAACATGCCGGTAATCTTGAAGCTTTTGTTCTGAAACTTGTCCCTACTGTAGATCTTGATCGACCATCAAAATTGGCCCAAGTGGCAATTGGAGTTGTCTCTTTTCCTGCTAAAGGCGTTGAATCACTTGAATACTGTTCCATCTGTTGTGATGATAAACCATCAATAATGATGATCACTATGAAATGTTCTCATGAGTTCTGTTCGCATTGCATGAGGACATATGTTGATGGGAAGATACAAGCCTCTCAAGTCCCCATCAGGTGCCCTCAGCTCAGATGCAAGTATTACATCTCCACTGCTGAATGCAAATCTTTTCTTCCACTCACTTCTTTCGAGTCATTGGAAAAAGCCCTTGAGGAAGCAAATATTCTACATTCGGATAGATTTTACTGCCCATTTCCAAATTGTTCTGTCCTGCTCGATCGTTCTGAATGTTCTTCAGCTTGTGAAAGTTCATCAATTCAGTCAGATAACAGCTGCATGGAATGCCCAGTTTGCAAGAGGTTCATCTGTGTAGATTGTGGGGTTCCTTGGCATTCTTCTATGAGTTGTGAGGAGTTCCAAAACCTCCCACTGGAAGAGAGAGATTCTGCAGATATTACCTTACATCGCCTGGCCCAAAATAAAAGCTGGAGGCGTTGCCAGCAGTGCCGTAGGATGATTGAGCTTACTCAAGGTTGCTACCACATGACATGCTGGTAA

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

IBR RVT_3 zf-C3HC4

Protein Analysis

390

Amino Acids

44.25

Weight (kDa)

4.68

Isoelectric Point (pI)

57.0

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RVT_3	PF13456	71 - 171	2.1e-07	Reverse transcriptase-like
IBR	PF01485	274 - 341	2.8e-07	IBR domain, a half RING-finger domain

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: OG0003818)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G19670 AT4G19670 AT4G19670 AT4G19670 AT4G19670 AT4G19670 AT4G19670
fragaria_vesca	FvH4_3g12010 FvH4_3g12010 FvH4_3g12010 FvH4_3g12010
malus_domestica	MD05G1255900.v1.1 MD10G1236000.v1.1 MD10G1236100.v1.1
prunus_persica	Prupe.4G108300_v2.0.a1 Prupe.4G108300_v2.0.a1 Prupe.4G108300_v2.0.a1 Prupe.4G108300_v2.0.a1
pyrus_communis	pycom05g23470 pycom10g19720 pycom10g19730
rosa_chinensis	RchiOBHm_Chr5g0019691
rosa_laevigata	RLG00000032461
rosa_multiflora	Rmu_co8286553.1_g000001 Rmu_sc0012330.1_g000002
rosa_roxburghii	Rroxscaffold_1G00058420
rosa_rugosa	Rorug05G0052500 Rorug05G0052500 Rorug05G0052600
rosa_samantha	Rh5AG143300 Rh5BG141900 Rh5CG153800 Rh5DG142500
rosa_wichuraiana	Rw5G012700

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	732
AclWI	GGATC	2 cut(s)	457, 470
AcsI	RAATTY	1 cut(s)	40
AcuI	CTGAAG	1 cut(s)	894
AfaI	GTAC	1 cut(s)	374
AfiI	CCNNNNNNNGG	2 cut(s)	581, 1045
AflIII	ACRYGT	1 cut(s)	165
AgsI	TTSAA	4 cut(s)	175, 488, 590, 599
AjnI	CCWGG	2 cut(s)	405, 1083
Alw26I	GTCTC	1 cut(s)	571
AlwI	GGATC	2 cut(s)	457, 470
AlwNI	CAGNNNCTG	1 cut(s)	389
Ama87I	CYCGRG	1 cut(s)	205
AoxI	GGCC	2 cut(s)	543, 1086
ApeKI	GCWGC	2 cut(s)	248, 948
ApoI	RAATTY	1 cut(s)	40
Asp700I	GAANNNNTTC	2 cut(s)	69, 167
AspS9I	GGNCC	2 cut(s)	544, 1087
AsuC2I	CCSGG	1 cut(s)	368
AsuHPI	GGTGA	2 cut(s)	35, 172
AsuII	TTCGAA	1 cut(s)	73
AvaI	CYCGRG	1 cut(s)	205
BaeGI	GKGCMC	1 cut(s)	737
BamHI	GGATCC	1 cut(s)	462
BanI	GGYRCC	1 cut(s)	732
BbsI	GAAGAC	1 cut(s)	63
BbvCI	CCTCAGC	1 cut(s)	738
BbvI	GCAGC	2 cut(s)	260, 935
BccI	CCATC	7 cut(s)	322, 326, 541, 617, 637, 692, 734
BceAI	ACGGC	1 cut(s)	1107
BcgI	CGANNNNNNTGC	2 cut(s)	63, 97
BciT130I	CCWGG	2 cut(s)	407, 1085
BclI	TGATCA	1 cut(s)	642
BcnI	CCSGG	1 cut(s)	368
BcoDI	GTCTC	1 cut(s)	571
BfaI	CTAG	3 cut(s)	48, 320, 467
BfmI	CTRYAG	2 cut(s)	516, 1062
BglI	GCCNNNNNGGC	1 cut(s)	551
BglII	AGATCT	1 cut(s)	520
BisI	GCNGC	2 cut(s)	249, 949
BlsI	GCNGC	2 cut(s)	250, 950
Bme1390I	CCNGG	3 cut(s)	368, 407, 1085
BmeT110I	CYCGRG	1 cut(s)	205
BmgT120I	GGNCC	2 cut(s)	544, 1087
BmiI	GGNNCC	4 cut(s)	303, 464, 734, 999
BmrFI	CCNGG	3 cut(s)	368, 407, 1085
BmrI	ACTGGG	2 cut(s)	201, 956
BmsI	GCATC	1 cut(s)	737
BmuI	ACTGGG	2 cut(s)	201, 956
BpiI	GAAGAC	1 cut(s)	63
BpmI	CTGGAG	1 cut(s)	1123
Bpu10I	CCTNAGC	1 cut(s)	738
Bpu14I	TTCGAA	1 cut(s)	73
BpuEI	CTTGAG	3 cut(s)	702, 845, 1128
BpuMI	CCSGG	1 cut(s)	368
BsaBI	GATNNNNATC	1 cut(s)	525
BsaJI	CCNNGG	1 cut(s)	1001
Bsc4I	CCNNNNNNNGG	2 cut(s)	581, 1045
Bse118I	RCCGGY	1 cut(s)	476
Bse1I	ACTGG	3 cut(s)	196, 962, 1050
Bse3DI	GCAATG	1 cut(s)	676
Bse8I	GATNNNNATC	1 cut(s)	525
BseBI	CCWGG	2 cut(s)	407, 1085
BseDI	CCNNGG	1 cut(s)	1001
BseGI	GGATG	2 cut(s)	337, 1134
BseJI	GATNNNNATC	1 cut(s)	525
BseLI	CCNNNNNNNGG	2 cut(s)	581, 1045
BseMI	GCAATG	1 cut(s)	676
BseMII	CTCAG	4 cut(s)	381, 443, 752, 757
BseNI	ACTGG	3 cut(s)	196, 962, 1050
BseRI	GAGGAG	3 cut(s)	314, 434, 1040
BseSI	GKGCMC	1 cut(s)	737
BseXI	GCAGC	2 cut(s)	260, 935
BsgI	GTGCAG	2 cut(s)	293, 371
Bsh1285I	CGRYCG	1 cut(s)	895
BshFI	GGCC	2 cut(s)	545, 1088
BshNI	GGYRCC	1 cut(s)	732
BsiEI	CGRYCG	1 cut(s)	895
BsiHKCI	CYCGRG	1 cut(s)	205
BsiSI	CCGG	2 cut(s)	367, 477
BslFI	GGGAC	3 cut(s)	215, 494, 707
BslI	CCNNNNNNNGG	2 cut(s)	581, 1045
BsmAI	GTCTC	1 cut(s)	571
BsmFI	GGGAC	3 cut(s)	215, 494, 707
BsmI	GAATGC	4 cut(s)	377, 779, 962, 1006
BsnI	GGCC	2 cut(s)	545, 1088
BsoBI	CYCGRG	1 cut(s)	205
Bsp119I	TTCGAA	1 cut(s)	73
Bsp1286I	GDGCHC	1 cut(s)	737
Bsp143I	GATC	6 cut(s)	142, 462, 520, 526, 642, 892
BspANI	GGCC	2 cut(s)	545, 1088
BspCNI	CTCAG	4 cut(s)	382, 444, 751, 756
BspHI	TCATGA	1 cut(s)	661
BspLI	GGNNCC	4 cut(s)	303, 464, 734, 999
BspMAI	CTGCAG	1 cut(s)	1066
BspPI	GGATC	2 cut(s)	457, 470
BspT104I	TTCGAA	1 cut(s)	73
BspT107I	GGYRCC	1 cut(s)	732
BsrDI	GCAATG	1 cut(s)	676
BsrFI	RCCGGY	1 cut(s)	476
BsrI	ACTGG	3 cut(s)	196, 962, 1050
BssAI	RCCGGY	1 cut(s)	476
BssECI	CCNNGG	1 cut(s)	1001
BssMI	GATC	6 cut(s)	142, 462, 520, 526, 642, 892
BssT1I	CCWWGG	1 cut(s)	1001
Bst2UI	CCWGG	2 cut(s)	407, 1085
Bst4CI	ACNGT	2 cut(s)	517, 605
Bst6I	CTCTTC	2 cut(s)	60, 1044
BstAPI	GCANNNNNTGC	1 cut(s)	957
BstBI	TTCGAA	1 cut(s)	73
BstC8I	GCNNGC	1 cut(s)	1115
BstDEI	CTNAG	4 cut(s)	390, 452, 738, 743
BstENI	CCTNNNNNAGG	1 cut(s)	579
BstF5I	GGATG	2 cut(s)	337, 1134
BstKTI	GATC	6 cut(s)	145, 465, 523, 529, 645, 895
BstMAI	GTCTC	1 cut(s)	571
BstMBI	GATC	6 cut(s)	142, 462, 520, 526, 642, 892
BstMCI	CGRYCG	1 cut(s)	895
BstMWI	GCNNNNNNNGC	6 cut(s)	280, 551, 957, 966, 1114, 1119
BstNI	CCWGG	2 cut(s)	407, 1085
BstNSI	RCATGY	3 cut(s)	169, 476, 1167
BstSCI	CCNGG	3 cut(s)	366, 405, 1083
BstSFI	CTRYAG	2 cut(s)	516, 1062
BstSLI	GKGCMC	1 cut(s)	737
BstV1I	GCAGC	2 cut(s)	260, 935
BstV2I	GAAGAC	1 cut(s)	63
BstX2I	RGATCY	2 cut(s)	462, 520
BstYI	RGATCY	2 cut(s)	462, 520
BsuRI	GGCC	2 cut(s)	545, 1088
BtgZI	GCGATG	1 cut(s)	1064
BtsCI	GGATG	2 cut(s)	337, 1134
BtsI	GCAGTG	2 cut(s)	765, 1124
BtsIMutI	CAGTG	4 cut(s)	449, 765, 1043, 1124
Cac8I	GCNNGC	1 cut(s)	1115
CaiI	CAGNNNCTG	1 cut(s)	389
CciI	TCATGA	1 cut(s)	661
Cfr10I	RCCGGY	1 cut(s)	476
Cfr13I	GGNCC	2 cut(s)	544, 1087
CsiI	ACCWGGT	1 cut(s)	405
Csp6I	GTAC	1 cut(s)	373
CviAII	CATG	8 cut(s)	166, 254, 473, 662, 682, 952, 1159, 1164
CviQI	GTAC	1 cut(s)	373
DdeI	CTNAG	4 cut(s)	390, 452, 738, 743
DpnI	GATC	6 cut(s)	144, 464, 522, 528, 644, 894
DpnII	GATC	6 cut(s)	142, 462, 520, 526, 642, 892
Eam1104I	CTCTTC	2 cut(s)	60, 1044
EarI	CTCTTC	2 cut(s)	60, 1044
Eco130I	CCWWGG	1 cut(s)	1001
Eco57I	CTGAAG	1 cut(s)	894
Eco88I	CYCGRG	1 cut(s)	205
EcoNI	CCTNNNNNAGG	1 cut(s)	579
EcoRII	CCWGG	2 cut(s)	405, 1083
EcoT14I	CCWWGG	1 cut(s)	1001
ErhI	CCWWGG	1 cut(s)	1001
FaeI	CATG	8 cut(s)	169, 257, 476, 665, 685, 955, 1162, 1167
FalI	AAGNNNNNCTT	2 cut(s)	129, 161
FaqI	GGGAC	3 cut(s)	215, 494, 707
FatI	CATG	8 cut(s)	165, 253, 472, 661, 681, 951, 1158, 1163
FauNDI	CATATG	1 cut(s)	691
FbaI	TGATCA	1 cut(s)	642
Fnu4HI	GCNGC	2 cut(s)	249, 949
FokI	GGATG	2 cut(s)	344, 1141
Fsp4HI	GCNGC	2 cut(s)	249, 949
FspBI	CTAG	3 cut(s)	48, 320, 467
GluI	GCNGC	2 cut(s)	249, 949
GsuI	CTGGAG	1 cut(s)	1123
HaeIII	GGCC	2 cut(s)	545, 1088
HapII	CCGG	2 cut(s)	367, 477
Hin1II	CATG	8 cut(s)	169, 257, 476, 665, 685, 955, 1162, 1167
HindIII	AAGCTT	2 cut(s)	281, 489
HinfI	GANTC	7 cut(s)	31, 131, 203, 386, 590, 806, 1058
HpaII	CCGG	2 cut(s)	367, 477
HphI	GGTGA	2 cut(s)	35, 172
Hpy166II	GTNNAC	2 cut(s)	163, 373
Hpy188I	TCNGA	7 cut(s)	327, 391, 501, 746, 850, 901, 940
Hpy188III	TCNNGA	4 cut(s)	146, 485, 524, 662
Hpy8I	GTNNAC	2 cut(s)	163, 373
HpyAV	CCTTC	2 cut(s)	97, 118
HpyCH4III	ACNGT	2 cut(s)	517, 605
HpyCH4V	TGCA	8 cut(s)	274, 352, 681, 750, 777, 951, 969, 1064
HpyF10VI	GCNNNNNNNGC	6 cut(s)	280, 551, 957, 966, 1114, 1119
HpyF3I	CTNAG	4 cut(s)	390, 452, 738, 743
Hsp92II	CATG	8 cut(s)	169, 257, 476, 665, 685, 955, 1162, 1167
Ksp22I	TGATCA	1 cut(s)	642
Kzo9I	GATC	6 cut(s)	142, 462, 520, 526, 642, 892
LmnI	GCTCC	1 cut(s)	301
Lsp1109I	GCAGC	2 cut(s)	260, 935
LweI	GCATC	1 cut(s)	737
MabI	ACCWGGT	1 cut(s)	405
MaeI	CTAG	3 cut(s)	48, 320, 467
MaeIII	GTNAC	1 cut(s)	187
MalI	GATC	6 cut(s)	144, 464, 522, 528, 644, 894
MboI	GATC	6 cut(s)	142, 462, 520, 526, 642, 892
MfeI	CAATTG	1 cut(s)	555
MflI	RGATCY	2 cut(s)	462, 520
MhlI	GDGCHC	1 cut(s)	737
MluCI	AATT	6 cut(s)	40, 264, 539, 555, 874, 930
MlyI	GAGTC	3 cut(s)	140, 197, 815
MroXI	GAANNNNTTC	2 cut(s)	69, 167
MspA1I	CMGCKG	1 cut(s)	948
MspI	CCGG	2 cut(s)	367, 477
MspR9I	CCNGG	3 cut(s)	368, 407, 1085
MunI	CAATTG	1 cut(s)	555
Mva1269I	GAATGC	4 cut(s)	377, 779, 962, 1006
MvaI	CCWGG	2 cut(s)	407, 1085
MwoI	GCNNNNNNNGC	6 cut(s)	280, 551, 957, 966, 1114, 1119
NciI	CCSGG	1 cut(s)	368
NdeI	CATATG	1 cut(s)	691
NdeII	GATC	6 cut(s)	142, 462, 520, 526, 642, 892
NlaIII	CATG	8 cut(s)	169, 257, 476, 665, 685, 955, 1162, 1167
NlaIV	GGNNCC	4 cut(s)	303, 464, 734, 999
NspI	RCATGY	3 cut(s)	169, 476, 1167
NspV	TTCGAA	1 cut(s)	73
PaeR7I	CTCGAG	1 cut(s)	205
PagI	TCATGA	1 cut(s)	661
PciI	ACATGT	1 cut(s)	165
PctI	GAATGC	4 cut(s)	377, 779, 962, 1006
PdmI	GAANNNNTTC	2 cut(s)	69, 167
PfeI	GAWTC	4 cut(s)	31, 386, 590, 1058
PkrI	GCNGC	2 cut(s)	250, 950
Ple19I	CGATCG	1 cut(s)	895
PleI	GAGTC	3 cut(s)	139, 197, 814
PpsI	GAGTC	3 cut(s)	139, 197, 814
PscI	ACATGT	1 cut(s)	165
Psp6I	CCWGG	2 cut(s)	405, 1083
PspGI	CCWGG	2 cut(s)	405, 1083
PspN4I	GGNNCC	4 cut(s)	303, 464, 734, 999
PspPI	GGNCC	2 cut(s)	544, 1087
PspXI	VCTCGAGB	1 cut(s)	205
PstI	CTGCAG	1 cut(s)	1066
PstNI	CAGNNNCTG	1 cut(s)	389
PsuI	RGATCY	2 cut(s)	462, 520
PvuI	CGATCG	1 cut(s)	895
PvuII	CAGCTG	1 cut(s)	948
RsaI	GTAC	1 cut(s)	374
RsaNI	GTAC	1 cut(s)	373
SatI	GCNGC	2 cut(s)	249, 949
Sau3AI	GATC	6 cut(s)	142, 462, 520, 526, 642, 892
Sau96I	GGNCC	2 cut(s)	544, 1087
SchI	GAGTC	3 cut(s)	140, 197, 815
ScrFI	CCNGG	3 cut(s)	368, 407, 1085
SduI	GDGCHC	1 cut(s)	737
SexAI	ACCWGGT	1 cut(s)	405
SfaNI	GCATC	1 cut(s)	737
SfcI	CTRYAG	2 cut(s)	516, 1062
Sfr274I	CTCGAG	1 cut(s)	205
SfuI	TTCGAA	1 cut(s)	73
SlaI	CTCGAG	1 cut(s)	205
SmlI	CTYRAG	4 cut(s)	205, 717, 824, 1143
SmoI	CTYRAG	4 cut(s)	205, 717, 824, 1143
Sse9I	AATT	6 cut(s)	40, 264, 539, 555, 874, 930
SspI	AATATT	1 cut(s)	838
SspMI	CTAG	3 cut(s)	48, 320, 467
StyD4I	CCNGG	3 cut(s)	366, 405, 1083
StyI	CCWWGG	1 cut(s)	1001
TaaI	ACNGT	2 cut(s)	517, 605
TaqI	TCGA	5 cut(s)	73, 206, 529, 804, 891
TasI	AATT	6 cut(s)	40, 264, 539, 555, 874, 930
TfiI	GAWTC	4 cut(s)	31, 386, 590, 1058
TscAI	CASTG	4 cut(s)	456, 772, 1050, 1124
TseI	GCWGC	2 cut(s)	248, 948
TspDTI	ATGAA	4 cut(s)	129, 665, 915, 967
TspRI	CASTG	4 cut(s)	456, 772, 1050, 1124
XagI	CCTNNNNNAGG	1 cut(s)	579
XapI	RAATTY	1 cut(s)	40
XceI	RCATGY	3 cut(s)	169, 476, 1167
XcmI	CCANNNNNNNNNTGG	1 cut(s)	554
XhoI	CTCGAG	1 cut(s)	205
XmnI	GAANNNNTTC	2 cut(s)	69, 167
XspI	CTAG	3 cut(s)	48, 320, 467

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