Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4B

Orthogroup ID

OG0004121

Physical Location & Seq

Genomic Coordinates Forward (+)

38627455 .. 38631910

Gene Structure 4456 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4BG223300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 876 bp

ATGAGCCTCATATGCTTCCCTATCTTTTGCAGATACCGTTTGAGGGCTAAGGTGGACATTGAGAATGTGGCAGACGAGTTACATTGCTGGCAGCGTTATGGGGGAAAGCTATCTGAGAAGGACTCCTCTGTAGAAGAACCAGAAGCTGCTAGTGTTGGCTGGGGTGCTGGTGTTGATCGCTTAGGCATGTCAACTTCACGTGGAGAGCCTTGTGGATGGCAGTGGTTTAAGGATCCGAGATTGGATTGCCTTGGTTTCAGGGGGATCTTCCCGTCTAATACAACACCACCTTTGGTTGAAGCTGACAAAGAAACAGATGAACAAAACTACCTTCTATGGAGAATAGAAAATGGTGTTGCAGAAGGATCAACCGACATCCCTAAAGGTGAGGCAATTCCTCTAGAATATAACCTGGTGGCTCTAAATGCAATTAGCTTTGACAAAGGGTGTTATGTGGGTCAAGAGCTTGTTGCTCGAACACACCACAGAGGGGTCATTCGCAAACGCCTGCTTCCTCTAAAATTTCTCAAGGATAGCGGAGAAGGTAATCAAACTTCCTGTAAAAAATTTCAAATTTTTTATTTTGTCCGAATATCCCAGCCCTTACCTGTATATGTTATATGTTCTTCAGAAGCAGAGCAGAAGGTTGCCCCTGGCTCTGAAGTGATTGATAGTGTTTCTGACAAGAAAATTGGTACTGTCACAACTCAACTTGGATGTCGTGGACTTGGTGTCTTGCGTTTGGATGAAGCTTTTAAAGGATCAAGTACGCTAACCATACGAAGCCAGGACGATGTGAAGGTCGAGCCTATTAGACCCGATTGGTGGCCGCCTGAATGGTTGCAAGGACATCAGCGTCAAAGTGCAGCTGCTTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005739 GO:0005759 GO:0006790 GO:0008150 GO:0008152 GO:0009987 GO:0016043 GO:0016226 GO:0022607 GO:0031163 GO:0031974 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0044085 GO:0044237 GO:0044422 GO:0044424 GO:0044429 GO:0044444 GO:0044446 GO:0044464 GO:0051186 GO:0070013 GO:0071840

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

GCV_T_C

Protein Analysis

291

Amino Acids

32.55

Weight (kDa)

5.92

Isoelectric Point (pI)

36.17

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Beta-barrel_CAF17_C	PF25455	167 - 277	5.6e-18	CAF17, C-terminal beta-barrel domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0004121)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G12130
fragaria_vesca	FvH4_5g00670 FvH4_5g00670 FvH4_5g00670 FvH4_5g00670 FvH4_5g00670
malus_domestica	MD04G1079500.v1.1
prunus_persica	Prupe.5G079500_v2.0.a1 Prupe.5G079500_v2.0.a1
pyrus_communis	pycom04g07160
rosa_chinensis	RchiOBHm_Chr4g0419741 RchiOBHm_Chr7g0201591
rosa_laevigata	RLG00000003663 RLG00000007800
rosa_multiflora	Rmu_sc0014889.1_g000001 Rmu_sc0016868.1_g000005 Rmu_sc0016868.1_g000007
rosa_roxburghii	Rroxscaffold_3G00255220 Rroxscaffold_5G00362570
rosa_rugosa	Rorug04G0160100 Rorug04G0160200 Rorug04G0160300 Rorug07G0064900 Rorug07G0065000
rosa_samantha	Rh4BG223300 Rh4CG234600 Rh4DG220300 Rh7AG191500 Rh7BG193800 Rh7CG202900 Rh7DG196800
rosa_wichuraiana	Rw4G019050 Rw7G016790

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	855
AciI	CCGC	2 cut(s)	537, 830
AclWI	GGATC	5 cut(s)	227, 240, 272, 373, 769
AcoI	YGGCCR	1 cut(s)	827
AcsI	RAATTY	3 cut(s)	521, 566, 573
AcuI	CTGAAG	2 cut(s)	612, 681
AcvI	CACGTG	1 cut(s)	200
AfaI	GTAC	2 cut(s)	697, 769
AfiI	CCNNNNNNNGG	3 cut(s)	43, 490, 825
AgsI	TTSAA	2 cut(s)	299, 572
AhdI	GACNNNNNGTC	1 cut(s)	731
AjnI	CCWGG	3 cut(s)	411, 652, 786
AluBI	AGCT	7 cut(s)	109, 146, 302, 435, 466, 752, 869
AluI	AGCT	7 cut(s)	109, 146, 302, 435, 466, 752, 869
AlwI	GGATC	5 cut(s)	227, 240, 272, 373, 769
AlwNI	CAGNNNCTG	1 cut(s)	146
AoxI	GGCC	1 cut(s)	827
ApeKI	GCWGC	4 cut(s)	91, 146, 866, 869
ApoI	RAATTY	3 cut(s)	521, 566, 573
AsuHPI	GGTGA	1 cut(s)	398
BamHI	GGATCC	1 cut(s)	232
BarI	GAAGNNNNNNTAC	2 cut(s)	538, 570
BbrPI	CACGTG	1 cut(s)	200
BbvI	GCAGC	3 cut(s)	103, 133, 856
BccI	CCATC	1 cut(s)	210
BciT130I	CCWGG	3 cut(s)	413, 654, 788
BfaI	CTAG	2 cut(s)	150, 401
BfmI	CTRYAG	1 cut(s)	129
BisI	GCNGC	5 cut(s)	92, 147, 830, 867, 870
BlsI	GCNGC	5 cut(s)	93, 148, 831, 868, 871
Bme1390I	CCNGG	3 cut(s)	413, 654, 788
BmeRI	GACNNNNNGTC	1 cut(s)	731
BmiI	GGNNCC	1 cut(s)	234
BmrFI	CCNGG	3 cut(s)	413, 654, 788
BplI	GAGNNNNNCTC	2 cut(s)	107, 139
Bpu10I	CCTNAGC	2 cut(s)	48, 181
BpuEI	CTTGAG	1 cut(s)	512
BsaAI	YACGTR	1 cut(s)	200
BsaJI	CCNNGG	2 cut(s)	250, 652
Bsc4I	CCNNNNNNNGG	3 cut(s)	43, 490, 825
Bse3DI	GCAATG	1 cut(s)	82
BseBI	CCWGG	3 cut(s)	413, 654, 788
BseDI	CCNNGG	2 cut(s)	250, 652
BseGI	GGATG	4 cut(s)	221, 375, 722, 751
BseLI	CCNNNNNNNGG	3 cut(s)	43, 490, 825
BseMI	GCAATG	1 cut(s)	82
BseMII	CTCAG	1 cut(s)	105
BseRI	GAGGAG	1 cut(s)	115
BseXI	GCAGC	3 cut(s)	103, 133, 856
BseYI	CCCAGC	2 cut(s)	159, 597
BshFI	GGCC	1 cut(s)	829
BslI	CCNNNNNNNGG	3 cut(s)	43, 490, 825
BsnI	GGCC	1 cut(s)	829
Bsp143I	GATC	5 cut(s)	175, 232, 264, 365, 761
BspACI	CCGC	2 cut(s)	537, 830
BspANI	GGCC	1 cut(s)	829
BspCNI	CTCAG	1 cut(s)	106
BspLI	GGNNCC	1 cut(s)	234
BspPI	GGATC	5 cut(s)	227, 240, 272, 373, 769
BsrDI	GCAATG	1 cut(s)	82
BssECI	CCNNGG	2 cut(s)	250, 652
BssMI	GATC	5 cut(s)	175, 232, 264, 365, 761
BssT1I	CCWWGG	1 cut(s)	250
Bst2UI	CCWGG	3 cut(s)	413, 654, 788
Bst4CI	ACNGT	2 cut(s)	38, 700
BstBAI	YACGTR	1 cut(s)	200
BstC8I	GCNNGC	2 cut(s)	89, 509
BstDEI	CTNAG	3 cut(s)	48, 114, 181
BstF5I	GGATG	4 cut(s)	221, 375, 722, 751
BstKTI	GATC	5 cut(s)	178, 235, 267, 368, 764
BstMBI	GATC	5 cut(s)	175, 232, 264, 365, 761
BstMWI	GCNNNNNNNGC	2 cut(s)	12, 425
BstNI	CCWGG	3 cut(s)	413, 654, 788
BstNSI	RCATGY	1 cut(s)	190
BstSCI	CCNGG	3 cut(s)	411, 652, 786
BstSFI	CTRYAG	1 cut(s)	129
BstV1I	GCAGC	3 cut(s)	103, 133, 856
BstX2I	RGATCY	2 cut(s)	232, 264
BstYI	RGATCY	2 cut(s)	232, 264
BsuRI	GGCC	1 cut(s)	829
BtsCI	GGATG	4 cut(s)	221, 375, 722, 751
BtsI	GCAGTG	1 cut(s)	227
BtsIMutI	CAGTG	1 cut(s)	227
Cac8I	GCNNGC	2 cut(s)	89, 509
CaiI	CAGNNNCTG	1 cut(s)	146
CseI	GACGC	1 cut(s)	845
CsiI	ACCWGGT	1 cut(s)	411
Csp6I	GTAC	2 cut(s)	696, 768
CviAII	CATG	1 cut(s)	187
CviQI	GTAC	2 cut(s)	696, 768
DdeI	CTNAG	3 cut(s)	48, 114, 181
DpnI	GATC	5 cut(s)	177, 234, 266, 367, 763
DpnII	GATC	5 cut(s)	175, 232, 264, 365, 761
DraI	TTTAAA	1 cut(s)	757
DrdI	GACNNNNNNGTC	1 cut(s)	855
DriI	GACNNNNNGTC	1 cut(s)	731
DseDI	GACNNNNNNGTC	1 cut(s)	855
EaeI	YGGCCR	1 cut(s)	827
Eam1105I	GACNNNNNGTC	1 cut(s)	731
Eco130I	CCWWGG	1 cut(s)	250
Eco57I	CTGAAG	2 cut(s)	612, 681
Eco72I	CACGTG	1 cut(s)	200
EcoRII	CCWGG	3 cut(s)	411, 652, 786
EcoT14I	CCWWGG	1 cut(s)	250
ErhI	CCWWGG	1 cut(s)	250
FaeI	CATG	1 cut(s)	190
FatI	CATG	1 cut(s)	186
FauNDI	CATATG	1 cut(s)	11
Fnu4HI	GCNGC	5 cut(s)	92, 147, 830, 867, 870
FokI	GGATG	4 cut(s)	228, 362, 729, 758
Fsp4HI	GCNGC	5 cut(s)	92, 147, 830, 867, 870
FspBI	CTAG	2 cut(s)	150, 401
GluI	GCNGC	5 cut(s)	92, 147, 830, 867, 870
GsaI	CCCAGC	2 cut(s)	163, 601
HaeIII	GGCC	1 cut(s)	829
HgaI	GACGC	1 cut(s)	845
Hin1II	CATG	1 cut(s)	190
HincII	GTYRAC	1 cut(s)	192
HindII	GTYRAC	1 cut(s)	192
HindIII	AAGCTT	1 cut(s)	750
HinfI	GANTC	1 cut(s)	122
HphI	GGTGA	1 cut(s)	398
Hpy166II	GTNNAC	3 cut(s)	55, 192, 725
Hpy188I	TCNGA	6 cut(s)	115, 237, 590, 631, 661, 682
Hpy188III	TCNNGA	2 cut(s)	401, 461
Hpy8I	GTNNAC	3 cut(s)	55, 192, 725
HpyAV	CCTTC	6 cut(s)	112, 341, 356, 536, 637, 793
HpyCH4III	ACNGT	2 cut(s)	38, 700
HpyCH4IV	ACGT	1 cut(s)	199
HpyCH4V	TGCA	5 cut(s)	30, 359, 428, 844, 866
HpyF10VI	GCNNNNNNNGC	2 cut(s)	12, 425
HpyF3I	CTNAG	3 cut(s)	48, 114, 181
HpySE526I	ACGT	1 cut(s)	199
Hsp92II	CATG	1 cut(s)	190
Kzo9I	GATC	5 cut(s)	175, 232, 264, 365, 761
Lsp1109I	GCAGC	3 cut(s)	103, 133, 856
MabI	ACCWGGT	1 cut(s)	411
MaeI	CTAG	2 cut(s)	150, 401
MaeII	ACGT	1 cut(s)	199
MaeIII	GTNAC	2 cut(s)	78, 700
MalI	GATC	5 cut(s)	177, 234, 266, 367, 763
MboI	GATC	5 cut(s)	175, 232, 264, 365, 761
MboII	GAAGA	3 cut(s)	146, 259, 618
MflI	RGATCY	2 cut(s)	232, 264
MluCI	AATT	6 cut(s)	393, 429, 521, 566, 573, 690
MlyI	GAGTC	1 cut(s)	116
MnlI	CCTC	7 cut(s)	17, 36, 136, 382, 408, 482, 525
MseI	TTAA	3 cut(s)	228, 756, 874
MspA1I	CMGCKG	1 cut(s)	869
MspR9I	CCNGG	3 cut(s)	413, 654, 788
MvaI	CCWGG	3 cut(s)	413, 654, 788
MwoI	GCNNNNNNNGC	2 cut(s)	12, 425
NdeI	CATATG	1 cut(s)	11
NdeII	GATC	5 cut(s)	175, 232, 264, 365, 761
NlaIII	CATG	1 cut(s)	190
NlaIV	GGNNCC	1 cut(s)	234
NmuCI	GTSAC	1 cut(s)	700
NspI	RCATGY	1 cut(s)	190
PkrI	GCNGC	5 cut(s)	93, 148, 831, 868, 871
PleI	GAGTC	1 cut(s)	116
PmaCI	CACGTG	1 cut(s)	200
PmlI	CACGTG	1 cut(s)	200
PpsI	GAGTC	1 cut(s)	116
Ppu21I	YACGTR	1 cut(s)	200
Psp6I	CCWGG	3 cut(s)	411, 652, 786
PspCI	CACGTG	1 cut(s)	200
PspFI	CCCAGC	2 cut(s)	159, 597
PspGI	CCWGG	3 cut(s)	411, 652, 786
PspN4I	GGNNCC	1 cut(s)	234
PstNI	CAGNNNCTG	1 cut(s)	146
PsuI	RGATCY	2 cut(s)	232, 264
PvuII	CAGCTG	1 cut(s)	869
RsaI	GTAC	2 cut(s)	697, 769
RsaNI	GTAC	2 cut(s)	696, 768
SaqAI	TTAA	3 cut(s)	228, 756, 874
SatI	GCNGC	5 cut(s)	92, 147, 830, 867, 870
Sau3AI	GATC	5 cut(s)	175, 232, 264, 365, 761
SchI	GAGTC	1 cut(s)	116
ScrFI	CCNGG	3 cut(s)	413, 654, 788
SexAI	ACCWGGT	1 cut(s)	411
SfcI	CTRYAG	1 cut(s)	129
SmlI	CTYRAG	1 cut(s)	527
SmoI	CTYRAG	1 cut(s)	527
Sse9I	AATT	6 cut(s)	393, 429, 521, 566, 573, 690
SsiI	CCGC	2 cut(s)	537, 830
SspMI	CTAG	2 cut(s)	150, 401
StyD4I	CCNGG	3 cut(s)	411, 652, 786
StyI	CCWWGG	1 cut(s)	250
TaaI	ACNGT	2 cut(s)	38, 700
TaiI	ACGT	1 cut(s)	202
TaqI	TCGA	2 cut(s)	475, 804
TasI	AATT	6 cut(s)	393, 429, 521, 566, 573, 690
TauI	GCSGC	1 cut(s)	832
Tru1I	TTAA	3 cut(s)	228, 756, 874
Tru9I	TTAA	3 cut(s)	228, 756, 874
TscAI	CASTG	1 cut(s)	227
TseFI	GTSAC	1 cut(s)	700
TseI	GCWGC	4 cut(s)	91, 146, 866, 869
Tsp45I	GTSAC	1 cut(s)	700
TspDTI	ATGAA	2 cut(s)	333, 762
TspRI	CASTG	1 cut(s)	227
XapI	RAATTY	3 cut(s)	521, 566, 573
XbaI	TCTAGA	1 cut(s)	400
XceI	RCATGY	1 cut(s)	190
XspI	CTAG	2 cut(s)	150, 401

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