Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4A

Orthogroup ID

OG0001624

Physical Location & Seq

Genomic Coordinates Forward (+)

23842582 .. 23843809

Gene Structure 1228 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4AG110400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 417 bp

ATGGACACTGGCGAGTACTATTTCTTAGAGTTGAACCCTTGGTTGCAGGTGGAGCACCCGGTCACTAAGTGGATAGCAGAAATAAATCTGCTAGCAGCCCAAGTTGCAATTGGGATGGGCATTCCTCTTTGGCAAATTCCTGAGATAAGGCGGTTCTATGGAATGGAACATGGTAGTGGATATGATGCTTGGAGAAAGACGTCAGTGGTTGCCACTCCATTTGACTTTGACAAGGCAGAATCTAAAAGGCCAAAAGGTCATTGTGTTGCTGTGCGCGTAACAAGTGAGGATCCAGATGATGGCTTTAAACCTGCTAGTGGGAAAGTTCAGGCTTGTGGTAGTGGTAAGAGTTTATTAGTTTGGAACCTTCCTGCTTTTGAATGCATTTCAAGGACTTCAACTCGTGCATCTGTATAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0003006 GO:0003674 GO:0003824 GO:0003989 GO:0005575 GO:0005623 GO:0005886 GO:0006082 GO:0006629 GO:0006631 GO:0006633 GO:0007275 GO:0008150 GO:0008152 GO:0008610 GO:0009058 GO:0009653 GO:0009719 GO:0009725 GO:0009735 GO:0009790 GO:0009791 GO:0009793 GO:0009888 GO:0009933 GO:0009987 GO:0010014 GO:0010016 GO:0010033 GO:0010072 GO:0010154 GO:0016020 GO:0016053 GO:0016421 GO:0016874 GO:0016885 GO:0019752 GO:0022414 GO:0022622 GO:0030497 GO:0032501 GO:0032502 GO:0032787 GO:0042221 GO:0043436 GO:0044237 GO:0044238 GO:0044249 GO:0044255 GO:0044281 GO:0044283 GO:0044464 GO:0046394 GO:0048316 GO:0048364 GO:0048367 GO:0048507 GO:0048508 GO:0048532 GO:0048608 GO:0048731 GO:0048856 GO:0050896 GO:0061458 GO:0071704 GO:0071944 GO:0072330 GO:0090421 GO:0099402 GO:1901576

KEGG Pathways

Metabolic & Signaling

ko00061 ko00254 ko00620 ko00640 ko01100 ko01110 ko01212 ko04152 ko04910 ko04922 map00061 map00254 map00620 map00640 map01100 map01110 map01212 map04152 map04910 map04922

Pfam Domains

Protein Families

ACC_central Biotin_carb_C Biotin_carb_N Biotin_lipoyl CPSase_L_D2 Carboxyl_trans

Protein Analysis

138

Amino Acids

15.37

Weight (kDa)

6.28

Isoelectric Point (pI)

37.79

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
CPSase_L_D2	PF02786	3 - 44	1.1e-06	Carbamoyl-phosphate synthase L chain, ATP binding domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0001624)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G53390
fragaria_vesca	FvH4_6g32451 FvH4_7g18960 FvH4_7g18960
malus_domestica	MD00G1214200.v1.1
prunus_persica	Prupe.2G210600_v2.0.a1 Prupe.2G210600_v2.0.a1 Prupe.2G210600_v2.0.a1
pyrus_communis	pycom01g13180 pycom01g13190 pycom07g16600
rosa_chinensis	RchiOBHm_Chr1g0360271 RchiOBHm_Chr1g0362891 RchiOBHm_Chr2g0140691 RchiOBHm_Chr2g0140701
rosa_laevigata	RLG00000003015 RLG00000019892 RLG00000019893 RLG00000027614
rosa_multiflora	Rmu_co8315067.1_g000001 Rmu_sc0001502.1_g000011 Rmu_sc0003342.1_g000012 Rmu_sc0003342.1_g000013
rosa_roxburghii	Rroxscaffold_1G00043370 Rroxscaffold_2G00104570 Rroxscaffold_2G00104580 Rroxscaffold_3G00227580 Rroxscaffold_4G00293670 Rroxscaffold_5G00347780 Rroxscaffold_5G00347800
rosa_rugosa	Rorug01G0302100 Rorug02G0364100 Rorug02G0364100 Rorug03G0261700
rosa_samantha	Rh1AG185000 Rh1AG311300 Rh1BG274400 Rh1DG305200 Rh2AG327100 Rh2AG415900 Rh2BG425300 Rh2BG425400 Rh2DG435400 Rh4AG110400 Rh6DG223100 Rh7BG077900
rosa_wichuraiana	Rw1G027590 Rw2G034020 Rw2G034030

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	37
AatII	GACGTC	1 cut(s)	203
Acc36I	ACCTGC	2 cut(s)	37, 319
AccB7I	CCANNNNNTGG	1 cut(s)	299
AccII	CGCG	1 cut(s)	276
AciI	CCGC	1 cut(s)	151
AclWI	GGATC	2 cut(s)	284, 297
AcsI	RAATTY	1 cut(s)	135
AcyI	GRCGYC	1 cut(s)	200
AdeI	CACNNNGTG	1 cut(s)	69
AfaI	GTAC	1 cut(s)	17
AfiI	CCNNNNNNNGG	2 cut(s)	299, 317
AgsI	TTSAA	4 cut(s)	34, 380, 390, 399
Alw21I	GWGCWC	1 cut(s)	57
AlwI	GGATC	2 cut(s)	284, 297
AoxI	GGCC	1 cut(s)	248
ApeKI	GCWGC	1 cut(s)	95
ApoI	RAATTY	1 cut(s)	135
AspLEI	GCGC	1 cut(s)	276
AsuC2I	CCSGG	1 cut(s)	59
AsuNHI	GCTAGC	1 cut(s)	91
BamHI	GGATCC	1 cut(s)	289
BauI	CACGAG	1 cut(s)	402
Bbv12I	GWGCWC	1 cut(s)	57
BbvI	GCAGC	1 cut(s)	107
BccI	CCATC	2 cut(s)	109, 293
BcnI	CCSGG	1 cut(s)	59
BfaI	CTAG	2 cut(s)	92, 315
BfuAI	ACCTGC	2 cut(s)	37, 319
BisI	GCNGC	1 cut(s)	96
BlsI	GCNGC	1 cut(s)	97
BmcAI	AGTACT	1 cut(s)	17
Bme1390I	CCNGG	1 cut(s)	59
BmiI	GGNNCC	2 cut(s)	291, 365
BmrFI	CCNGG	1 cut(s)	59
BmsI	GCATC	1 cut(s)	175
BmtI	GCTAGC	1 cut(s)	95
BpuMI	CCSGG	1 cut(s)	59
BsaHI	GRCGYC	1 cut(s)	200
BsaJI	CCNNGG	1 cut(s)	38
Bsc4I	CCNNNNNNNGG	2 cut(s)	299, 317
Bse1I	ACTGG	1 cut(s)	13
BseDI	CCNNGG	1 cut(s)	38
BseGI	GGATG	1 cut(s)	120
BseLI	CCNNNNNNNGG	2 cut(s)	299, 317
BseMII	CTCAG	1 cut(s)	132
BseNI	ACTGG	1 cut(s)	13
BseXI	GCAGC	1 cut(s)	107
Bsh1236I	CGCG	1 cut(s)	276
BshFI	GGCC	1 cut(s)	250
BsiHKAI	GWGCWC	1 cut(s)	57
BsiSI	CCGG	1 cut(s)	59
BslI	CCNNNNNNNGG	2 cut(s)	299, 317
BsmI	GAATGC	2 cut(s)	120, 386
BsnI	GGCC	1 cut(s)	250
Bsp1286I	GDGCHC	1 cut(s)	57
Bsp143I	GATC	1 cut(s)	289
BspACI	CCGC	1 cut(s)	151
BspANI	GGCC	1 cut(s)	250
BspCNI	CTCAG	1 cut(s)	133
BspFNI	CGCG	1 cut(s)	276
BspLI	GGNNCC	2 cut(s)	291, 365
BspMI	ACCTGC	2 cut(s)	37, 319
BspOI	GCTAGC	1 cut(s)	95
BspPI	GGATC	2 cut(s)	284, 297
BsrI	ACTGG	1 cut(s)	13
BssECI	CCNNGG	1 cut(s)	38
BssMI	GATC	1 cut(s)	289
BssNI	GRCGYC	1 cut(s)	200
BssSI	CACGAG	1 cut(s)	402
BssT1I	CCWWGG	1 cut(s)	38
Bst2BI	CACGAG	1 cut(s)	402
BstACI	GRCGYC	1 cut(s)	200
BstC8I	GCNNGC	1 cut(s)	93
BstDEI	CTNAG	3 cut(s)	25, 66, 141
BstF5I	GGATG	1 cut(s)	120
BstFNI	CGCG	1 cut(s)	276
BstHHI	GCGC	1 cut(s)	276
BstKTI	GATC	1 cut(s)	292
BstMBI	GATC	1 cut(s)	289
BstMWI	GCNNNNNNNGC	2 cut(s)	52, 104
BstSCI	CCNGG	1 cut(s)	57
BstUI	CGCG	1 cut(s)	276
BstV1I	GCAGC	1 cut(s)	107
BstX2I	RGATCY	1 cut(s)	289
BstYI	RGATCY	1 cut(s)	289
BsuRI	GGCC	1 cut(s)	250
BtsCI	GGATG	1 cut(s)	120
BtsIMutI	CAGTG	2 cut(s)	6, 210
BveI	ACCTGC	2 cut(s)	37, 319
Cac8I	GCNNGC	1 cut(s)	93
CfoI	GCGC	1 cut(s)	276
Csp6I	GTAC	1 cut(s)	16
CspCI	CAANNNNNGTGG	2 cut(s)	202, 237
CviAII	CATG	1 cut(s)	170
CviJI	RGCY	4 cut(s)	98, 250, 303, 332
CviKI_1	RGCY	4 cut(s)	98, 250, 303, 332
CviQI	GTAC	1 cut(s)	16
DdeI	CTNAG	3 cut(s)	25, 66, 141
DpnI	GATC	1 cut(s)	291
DpnII	GATC	1 cut(s)	289
DraI	TTTAAA	1 cut(s)	307
DraIII	CACNNNGTG	1 cut(s)	69
Eco130I	CCWWGG	1 cut(s)	38
EcoT14I	CCWWGG	1 cut(s)	38
EcoT22I	ATGCAT	1 cut(s)	386
ErhI	CCWWGG	1 cut(s)	38
FaeI	CATG	1 cut(s)	173
FaiI	YATR	4 cut(s)	159, 171, 183, 415
FatI	CATG	1 cut(s)	169
Fnu4HI	GCNGC	1 cut(s)	96
FokI	GGATG	1 cut(s)	127
Fsp4HI	GCNGC	1 cut(s)	96
FspBI	CTAG	2 cut(s)	92, 315
GlaI	GCGC	1 cut(s)	275
GluI	GCNGC	1 cut(s)	96
HaeIII	GGCC	1 cut(s)	250
HapII	CCGG	1 cut(s)	59
HhaI	GCGC	1 cut(s)	276
Hin1I	GRCGYC	1 cut(s)	200
Hin1II	CATG	1 cut(s)	173
Hin6I	GCGC	1 cut(s)	274
HinP1I	GCGC	1 cut(s)	274
HinfI	GANTC	1 cut(s)	239
HpaII	CCGG	1 cut(s)	59
Hpy188III	TCNNGA	2 cut(s)	140, 293
HpyAV	CCTTC	1 cut(s)	377
HpyCH4IV	ACGT	1 cut(s)	200
HpyCH4V	TGCA	4 cut(s)	46, 107, 384, 407
HpyF10VI	GCNNNNNNNGC	2 cut(s)	52, 104
HpyF3I	CTNAG	3 cut(s)	25, 66, 141
HpySE526I	ACGT	1 cut(s)	200
Hsp92I	GRCGYC	1 cut(s)	200
Hsp92II	CATG	1 cut(s)	173
HspAI	GCGC	1 cut(s)	274
Kzo9I	GATC	1 cut(s)	289
LmnI	GCTCC	1 cut(s)	52
LpnPI	CCDG	7 cut(s)	32, 72, 153, 306, 314, 324, 384
Lsp1109I	GCAGC	1 cut(s)	107
LweI	GCATC	1 cut(s)	175
MaeI	CTAG	2 cut(s)	92, 315
MaeII	ACGT	1 cut(s)	200
MaeIII	GTNAC	2 cut(s)	61, 277
MalI	GATC	1 cut(s)	291
MboI	GATC	1 cut(s)	289
MfeI	CAATTG	1 cut(s)	108
MflI	RGATCY	1 cut(s)	289
MhlI	GDGCHC	1 cut(s)	57
MluCI	AATT	2 cut(s)	108, 135
MnlI	CCTC	2 cut(s)	135, 280
Mph1103I	ATGCAT	1 cut(s)	386
MseI	TTAA	1 cut(s)	306
MslI	CAYNNNNRTG	1 cut(s)	174
MspI	CCGG	1 cut(s)	59
MspR9I	CCNGG	1 cut(s)	59
MunI	CAATTG	1 cut(s)	108
Mva1269I	GAATGC	2 cut(s)	120, 386
MvnI	CGCG	1 cut(s)	276
MwoI	GCNNNNNNNGC	2 cut(s)	52, 104
NciI	CCSGG	1 cut(s)	59
NdeII	GATC	1 cut(s)	289
NheI	GCTAGC	1 cut(s)	91
NlaIII	CATG	1 cut(s)	173
NlaIV	GGNNCC	2 cut(s)	291, 365
NmuCI	GTSAC	1 cut(s)	61
NsiI	ATGCAT	1 cut(s)	386
PaqCI	CACCTGC	1 cut(s)	37
PctI	GAATGC	2 cut(s)	120, 386
PfeI	GAWTC	1 cut(s)	239
PflMI	CCANNNNNTGG	1 cut(s)	299
PkrI	GCNGC	1 cut(s)	97
PspN4I	GGNNCC	2 cut(s)	291, 365
PsuI	RGATCY	1 cut(s)	289
RsaI	GTAC	1 cut(s)	17
RsaNI	GTAC	1 cut(s)	16
RseI	CAYNNNNRTG	1 cut(s)	174
SaqAI	TTAA	1 cut(s)	306
SatI	GCNGC	1 cut(s)	96
Sau3AI	GATC	1 cut(s)	289
ScaI	AGTACT	1 cut(s)	17
ScrFI	CCNGG	1 cut(s)	59
SduI	GDGCHC	1 cut(s)	57
SetI	ASST	5 cut(s)	51, 203, 259, 313, 369
SfaNI	GCATC	1 cut(s)	175
SmiMI	CAYNNNNRTG	1 cut(s)	174
Sse9I	AATT	2 cut(s)	108, 135
SsiI	CCGC	1 cut(s)	151
SspMI	CTAG	2 cut(s)	92, 315
StyD4I	CCNGG	1 cut(s)	57
StyI	CCWWGG	1 cut(s)	38
TaiI	ACGT	1 cut(s)	203
TasI	AATT	2 cut(s)	108, 135
TatI	WGTACW	1 cut(s)	15
TfiI	GAWTC	1 cut(s)	239
Tru1I	TTAA	1 cut(s)	306
Tru9I	TTAA	1 cut(s)	306
TscAI	CASTG	2 cut(s)	13, 210
TseFI	GTSAC	1 cut(s)	61
TseI	GCWGC	1 cut(s)	95
Tsp45I	GTSAC	1 cut(s)	61
TspRI	CASTG	2 cut(s)	13, 210
Van91I	CCANNNNNTGG	1 cut(s)	299
XapI	RAATTY	1 cut(s)	135
XcmI	CCANNNNNNNNNTGG	1 cut(s)	107
XspI	CTAG	2 cut(s)	92, 315
ZraI	GACGTC	1 cut(s)	201
ZrmI	AGTACT	1 cut(s)	17
Zsp2I	ATGCAT	1 cut(s)	386

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