Basic Information

Type: gene

Biological Identity

Species

rosa_chinensis

Chromosome

Orthogroup ID

OG0000703

Physical Location & Seq

Genomic Coordinates Reverse (-)

61433176 .. 61433571

Gene Structure 396 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

PRQ51386

Sequence Viewer

CDS Protein Promoter (2k)

Length: 396 bp

ATGGAACAATATCGCGATAGGGCTGCTGGTGGATCTGTTAATAATCCTCCATGGTTTGATGGAGGATGTGAAAAGTACACTCAATGGAAGATATACATGAAATCGTACTTGTATGCGCAAGATGAACATGTATGGAACATTGTGGAAAATGGATGGAAGACACCTATAATTCCAGCTGAAGGCTCGTCAGCCTCTATTCCTAAGCCAAGGAAGGACTGGACTGATGTGGAGGTACGCGATCTTCAAGCTGATTTCAAGGCAAAAAATAGCATTTTCACTGCTCTCTCTGAACGTGAAAAGCTGAGGATCAGTCACTGCGACACTGCAAAACAAGCTTGGGATCTGTTGCAGACATTCCATGTCCTTGAATTAATATTGATGGCGCAGCCATCGTAG

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

Retrotran_gag_2 zf-CCHC

Protein Analysis

131

Amino Acids

15.15

Weight (kDa)

5.9

Isoelectric Point (pI)

33.96

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Retrotran_gag_2	PF14223	40 - 120	2.6e-06	gag-polypeptide of LTR copia-type

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)

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Publication-ready

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Orthologous Genes (Group: OG0000703)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_1g12811 FvH4_1g24841 FvH4_2g03460 FvH4_2g30311 FvH4_3g16731 FvH4_3g16931 FvH4_3g21841 FvH4_3g31692 FvH4_3g35772 FvH4_3g37482 FvH4_4g03991 FvH4_4g08241 FvH4_4g09290 FvH4_4g14651 FvH4_4g18201 FvH4_5g17842 FvH4_5g18993 FvH4_6g19711 FvH4_6g36421 FvH4_6g45941 FvH4_6g45942 FvH4_7g03942 FvH4_7g10731 FvH4_7g33141
prunus_persica	Prupe.1G185200_v2.0.a1
pyrus_communis	pycom01g05340 pycom05g05480 pycom14g05470
rosa_chinensis	RchiOBHm_Chr2g0143791 RchiOBHm_Chr2g0164531 RchiOBHm_Chr2g0174931 RchiOBHm_Chr3g0456701 RchiOBHm_Chr3g0462591 RchiOBHm_Chr3g0488601 RchiOBHm_Chr3g0489031 RchiOBHm_Chr4g0421211 RchiOBHm_Chr4g0421221 RchiOBHm_Chr6g0278461 RchiOBHm_Chr7g0183661 RchiOBHm_Chr7g0219131
rosa_multiflora	Rmu_co8327135.1_g000001 Rmu_co8385793.1_g000001 Rmu_co8398081.1_g000001 Rmu_sc0000721.1_g000029 Rmu_sc0000898.1_g000075 Rmu_sc0001156.1_g000001 Rmu_sc0003339.1_g000002 Rmu_sc0003505.1_g000007 Rmu_sc0003673.1_g000008 Rmu_sc0005071.1_g000010 Rmu_sc0005087.1_g000005 Rmu_sc0005350.1_g000007 Rmu_ssc0000118.1_g000016 Rmu_ssc0000162.1_g000012
rosa_roxburghii	Rroxscaffold_2G00123320 Rroxscaffold_3G00238750 Rroxscaffold_4G00300220 Rroxscaffold_5G00382590 Rroxscaffold_7G00206960
rosa_samantha	Rh1CG187800 Rh2BG032400 Rh4DG325100 Rh5CG260800 Rh6AG171500 Rh6AG472000
rosa_wichuraiana	Rw1G003490 Rw1G007660 Rw2G031060 Rw3G014070 Rw3G014230 Rw6G006100 Rw6G019680 Rw7G016530 Rw7G032660

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc16I	TGCGCA	1 cut(s)	117
AccII	CGCG	2 cut(s)	15, 237
AclWI	GGATC	3 cut(s)	40, 314, 348
AcuI	CTGAAG	1 cut(s)	198
AfaI	GTAC	3 cut(s)	77, 107, 234
AfiI	CCNNNNNNNGG	1 cut(s)	179
AflIII	ACRYGT	1 cut(s)	127
AgsI	TTSAA	3 cut(s)	245, 256, 368
AluBI	AGCT	4 cut(s)	176, 248, 301, 335
AluI	AGCT	4 cut(s)	176, 248, 301, 335
AlwI	GGATC	3 cut(s)	40, 314, 348
AlwNI	CAGNNNCTG	1 cut(s)	315
ApeKI	GCWGC	2 cut(s)	23, 385
AseI	ATTAAT	1 cut(s)	371
AspLEI	GCGC	2 cut(s)	118, 385
BarI	GAAGNNNNNNTAC	2 cut(s)	225, 257
BbsI	GAAGAC	1 cut(s)	164
BbvCI	CCTCAGC	1 cut(s)	302
BbvI	GCAGC	1 cut(s)	10
BccI	CCATC	3 cut(s)	53, 147, 373
BcgI	CGANNNNNNTGC	2 cut(s)	5, 39
BisI	GCNGC	2 cut(s)	24, 386
BlsI	GCNGC	2 cut(s)	25, 387
BpiI	GAAGAC	1 cut(s)	164
Bpu10I	CCTNAGC	2 cut(s)	201, 302
BsaJI	CCNNGG	2 cut(s)	50, 206
Bsc4I	CCNNNNNNNGG	1 cut(s)	179
Bse1I	ACTGG	1 cut(s)	221
BseDI	CCNNGG	2 cut(s)	50, 206
BseGI	GGATG	2 cut(s)	71, 158
BseLI	CCNNNNNNNGG	1 cut(s)	179
BseMII	CTCAG	1 cut(s)	293
BseNI	ACTGG	1 cut(s)	221
BseXI	GCAGC	1 cut(s)	10
Bsh1236I	CGCG	2 cut(s)	15, 237
BslI	CCNNNNNNNGG	1 cut(s)	179
Bsp143I	GATC	4 cut(s)	32, 238, 306, 340
Bsp19I	CCATGG	1 cut(s)	50
Bsp68I	TCGCGA	1 cut(s)	15
BspCNI	CTCAG	1 cut(s)	294
BspFNI	CGCG	2 cut(s)	15, 237
BspPI	GGATC	3 cut(s)	40, 314, 348
BsrI	ACTGG	1 cut(s)	221
BssECI	CCNNGG	2 cut(s)	50, 206
BssMI	GATC	4 cut(s)	32, 238, 306, 340
BssT1I	CCWWGG	2 cut(s)	50, 206
BstDEI	CTNAG	2 cut(s)	201, 302
BstDSI	CCRYGG	1 cut(s)	50
BstF5I	GGATG	2 cut(s)	71, 158
BstFNI	CGCG	2 cut(s)	15, 237
BstHHI	GCGC	2 cut(s)	118, 385
BstKTI	GATC	4 cut(s)	35, 241, 309, 343
BstMBI	GATC	4 cut(s)	32, 238, 306, 340
BstMWI	GCNNNNNNNGC	1 cut(s)	332
BstNSI	RCATGY	1 cut(s)	131
BstUI	CGCG	2 cut(s)	15, 237
BstV1I	GCAGC	1 cut(s)	10
BstV2I	GAAGAC	1 cut(s)	164
BstX2I	RGATCY	2 cut(s)	32, 340
BstYI	RGATCY	2 cut(s)	32, 340
BtgI	CCRYGG	1 cut(s)	50
BtsCI	GGATG	2 cut(s)	71, 158
BtsI	GCAGTG	3 cut(s)	276, 313, 321
BtsIMutI	CAGTG	3 cut(s)	276, 313, 321
BtuMI	TCGCGA	1 cut(s)	15
CaiI	CAGNNNCTG	1 cut(s)	315
CfoI	GCGC	2 cut(s)	118, 385
Csp6I	GTAC	3 cut(s)	76, 106, 233
CviAII	CATG	4 cut(s)	51, 97, 128, 359
CviJI	RGCY	9 cut(s)	23, 176, 183, 191, 205, 248, 301, 335, 388
CviKI_1	RGCY	9 cut(s)	23, 176, 183, 191, 205, 248, 301, 335, 388
CviQI	GTAC	3 cut(s)	76, 106, 233
DdeI	CTNAG	2 cut(s)	201, 302
DpnI	GATC	4 cut(s)	34, 240, 308, 342
DpnII	GATC	4 cut(s)	32, 238, 306, 340
Eco130I	CCWWGG	2 cut(s)	50, 206
Eco57I	CTGAAG	1 cut(s)	198
EcoT14I	CCWWGG	2 cut(s)	50, 206
ErhI	CCWWGG	2 cut(s)	50, 206
FaeI	CATG	4 cut(s)	54, 100, 131, 362
FaiI	YATR	8 cut(s)	52, 94, 98, 114, 129, 133, 167, 360
FatI	CATG	4 cut(s)	50, 96, 127, 358
Fnu4HI	GCNGC	2 cut(s)	24, 386
FokI	GGATG	2 cut(s)	78, 165
Fsp4HI	GCNGC	2 cut(s)	24, 386
FspI	TGCGCA	1 cut(s)	117
GlaI	GCGC	2 cut(s)	117, 384
GluI	GCNGC	2 cut(s)	24, 386
HhaI	GCGC	2 cut(s)	118, 385
Hin1II	CATG	4 cut(s)	54, 100, 131, 362
Hin6I	GCGC	2 cut(s)	116, 383
HinP1I	GCGC	2 cut(s)	116, 383
HindIII	AAGCTT	1 cut(s)	333
Hpy166II	GTNNAC	1 cut(s)	78
Hpy188I	TCNGA	1 cut(s)	289
Hpy188III	TCNNGA	1 cut(s)	14
Hpy8I	GTNNAC	1 cut(s)	78
HpyAV	CCTTC	2 cut(s)	173, 205
HpyCH4IV	ACGT	1 cut(s)	292
HpyCH4V	TGCA	2 cut(s)	326, 349
HpyF10VI	GCNNNNNNNGC	1 cut(s)	332
HpyF3I	CTNAG	2 cut(s)	201, 302
HpySE526I	ACGT	1 cut(s)	292
Hsp92II	CATG	4 cut(s)	54, 100, 131, 362
HspAI	GCGC	2 cut(s)	116, 383
Kzo9I	GATC	4 cut(s)	32, 238, 306, 340
LpnPI	CCDG	3 cut(s)	12, 186, 202
Lsp1109I	GCAGC	1 cut(s)	10
MaeII	ACGT	1 cut(s)	292
MaeIII	GTNAC	1 cut(s)	311
MalI	GATC	4 cut(s)	34, 240, 308, 342
MboI	GATC	4 cut(s)	32, 238, 306, 340
MboII	GAAGA	3 cut(s)	100, 169, 233
MflI	RGATCY	2 cut(s)	32, 340
MluCI	AATT	2 cut(s)	168, 368
MnlI	CCTC	5 cut(s)	56, 57, 202, 223, 297
MseI	TTAA	2 cut(s)	39, 371
MspA1I	CMGCKG	1 cut(s)	176
MvnI	CGCG	2 cut(s)	15, 237
MwoI	GCNNNNNNNGC	1 cut(s)	332
NcoI	CCATGG	1 cut(s)	50
NdeII	GATC	4 cut(s)	32, 238, 306, 340
NlaIII	CATG	4 cut(s)	54, 100, 131, 362
NmuCI	GTSAC	1 cut(s)	311
NruI	TCGCGA	1 cut(s)	15
NsbI	TGCGCA	1 cut(s)	117
NspI	RCATGY	1 cut(s)	131
PciI	ACATGT	1 cut(s)	127
PkrI	GCNGC	2 cut(s)	25, 387
PscI	ACATGT	1 cut(s)	127
PshBI	ATTAAT	1 cut(s)	371
PstNI	CAGNNNCTG	1 cut(s)	315
PsuI	RGATCY	2 cut(s)	32, 340
PvuII	CAGCTG	1 cut(s)	176
RruI	TCGCGA	1 cut(s)	15
RsaI	GTAC	3 cut(s)	77, 107, 234
RsaNI	GTAC	3 cut(s)	76, 106, 233
SaqAI	TTAA	2 cut(s)	39, 371
SatI	GCNGC	2 cut(s)	24, 386
Sau3AI	GATC	4 cut(s)	32, 238, 306, 340
SetI	ASST	7 cut(s)	166, 178, 234, 250, 295, 303, 337
Sse9I	AATT	2 cut(s)	168, 368
SspI	AATATT	1 cut(s)	375
StyI	CCWWGG	2 cut(s)	50, 206
TaiI	ACGT	1 cut(s)	295
TasI	AATT	2 cut(s)	168, 368
TatI	WGTACW	1 cut(s)	75
Tru1I	TTAA	2 cut(s)	39, 371
Tru9I	TTAA	2 cut(s)	39, 371
TscAI	CASTG	3 cut(s)	283, 320, 328
TseFI	GTSAC	1 cut(s)	311
TseI	GCWGC	2 cut(s)	23, 385
Tsp45I	GTSAC	1 cut(s)	311
TspDTI	ATGAA	2 cut(s)	113, 138
TspRI	CASTG	3 cut(s)	283, 320, 328
VspI	ATTAAT	1 cut(s)	371
XceI	RCATGY	1 cut(s)	131
XcmI	CCANNNNNNNNNTGG	1 cut(s)	213

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