Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1C

Orthogroup ID

OG0002402

Physical Location & Seq

Genomic Coordinates Reverse (-)

41824486 .. 41859141

Gene Structure 34656 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1CG192400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 639 bp

ATGACTTGTTCCACAAACATTATAGAGCAAAGGCAGCAATTTAACTGCACTATGTCAGGACACCCTATCACCAAAATTCTCAATGAAAATCGTCTTGAGGGCCCAAACTTCAATGACTGGCTCCGCAATTTGAAAATTGTATTGACATTCGATAAGATCGCTTATGTCTTACAAAATGCACCTCCTCACACTCCATTGGCTCAAGATGCAACCGATGAGCAACGTGTTGCTTATCAAAAGCATAAGGATGATGACACGCAAGCTAAATGTGTTATGCTTGCATCCATGAACTCACAACTTCAGAAGCAACATGAGAATATGGATAGCGCCAGTTCTATATTACTTCATCTCACTGAATTGTTTGGTGAGAGAAATAGAAATGTGCGCTTCACAGTAGTCAATGAGCTTGTTAAGACAAAGCATGTGAGGGGTGCACCTGTGCATCAACATGCTGAGAAGCAAATCAAGAAAGAGAGTGGGAGTGCGGCCATTATCGCTTCTTCTTCATCCAGTAAGTCCAAAGGTAAAGGCAAAGGGAAGAAGAAACAAGACTTAAATTCTCCCGACTCATCTCAACTTATTAGTTACTTGCATGAAGTCATCAAAGAGCAAAATCCTATCTACAAGATAAATGAATAA

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

212

Amino Acids

23.96

Weight (kDa)

9.17

Isoelectric Point (pI)

42.68

Instability Index

Protein Domains (Pfam)

No Pfam domains detected for this protein.

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: OG0002402)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_5g29991
malus_domestica	MD00G1044200.v1.1
prunus_persica	Prupe.2G062600_v2.0.a1 Prupe.2G064700_v2.0.a1 Prupe.6G167800_v2.0.a1
pyrus_communis	pycom13g29530 pycom17g02500 pycom39g00040 pycom976g00080
rosa_chinensis	RchiOBHm_Chr1g0376911 RchiOBHm_Chr1g0379561 RchiOBHm_Chr2g0165661 RchiOBHm_Chr2g0176521
rosa_multiflora	Rmu_sc0000070.1_g000011 Rmu_sc0000555.1_g000020 Rmu_sc0001291.1_g000051 Rmu_sc0001306.1_g000003 Rmu_sc0005142.1_g000016 Rmu_ssc0000389.1_g000014
rosa_roxburghii	Rroxscaffold_2G00096870 Rroxscaffold_5G00384810 Rroxscaffold_6G00394930
rosa_samantha	Rh1CG138000 Rh1CG192400 Rh7BG220700
rosa_wichuraiana	Rw0G002230 Rw0G012080 Rw1G007200 Rw1G008660 Rw1G011890 Rw2G018430 Rw3G008190 Rw3G020340 Rw3G024460 Rw4G000210 Rw5G007300 Rw5G015820 Rw5G032410 Rw5G048130 Rw5G049610 Rw7G025770 Rw7G028470

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	2 cut(s)	124, 485
AcoI	YGGCCR	1 cut(s)	486
AcsI	RAATTY	2 cut(s)	75, 556
AcuI	CTGAAG	1 cut(s)	284
AflIII	ACRYGT	1 cut(s)	223
AgsI	TTSAA	2 cut(s)	112, 133
AluBI	AGCT	2 cut(s)	263, 406
AluI	AGCT	2 cut(s)	263, 406
Alw21I	GWGCWC	1 cut(s)	436
Alw44I	GTGCAC	1 cut(s)	432
AoxI	GGCC	2 cut(s)	100, 486
ApaI	GGGCCC	1 cut(s)	104
ApaLI	GTGCAC	1 cut(s)	432
ApeKI	GCWGC	1 cut(s)	34
ApoI	RAATTY	2 cut(s)	75, 556
AspLEI	GCGC	2 cut(s)	329, 387
AspS9I	GGNCC	2 cut(s)	100, 101
AsuHPI	GGTGA	2 cut(s)	61, 377
BaeGI	GKGCMC	2 cut(s)	104, 436
BanII	GRGCYC	1 cut(s)	104
Bbv12I	GWGCWC	1 cut(s)	436
BbvI	GCAGC	1 cut(s)	46
BfoI	RGCGCY	1 cut(s)	330
BisI	GCNGC	2 cut(s)	35, 486
BlsI	GCNGC	2 cut(s)	36, 487
BmgT120I	GGNCC	2 cut(s)	100, 101
BmiI	GGNNCC	2 cut(s)	102, 122
BmsI	GCATC	3 cut(s)	196, 290, 451
BpuEI	CTTGAG	2 cut(s)	116, 186
Bse1I	ACTGG	3 cut(s)	122, 330, 510
BseGI	GGATG	3 cut(s)	253, 281, 506
BseMII	CTCAG	1 cut(s)	444
BseNI	ACTGG	3 cut(s)	122, 330, 510
BseRI	GAGGAG	1 cut(s)	174
BseSI	GKGCMC	2 cut(s)	104, 436
BseXI	GCAGC	1 cut(s)	46
BsgI	GTGCAG	1 cut(s)	31
BshFI	GGCC	2 cut(s)	102, 488
BsiHKAI	GWGCWC	1 cut(s)	436
BsnI	GGCC	2 cut(s)	102, 488
Bsp120I	GGGCCC	1 cut(s)	100
Bsp1286I	GDGCHC	2 cut(s)	104, 436
Bsp143I	GATC	1 cut(s)	156
BspACI	CCGC	2 cut(s)	124, 485
BspANI	GGCC	2 cut(s)	102, 488
BspCNI	CTCAG	1 cut(s)	445
BspLI	GGNNCC	2 cut(s)	102, 122
BsrI	ACTGG	3 cut(s)	122, 330, 510
BssMI	GATC	1 cut(s)	156
Bst4CI	ACNGT	1 cut(s)	394
BstC8I	GCNNGC	2 cut(s)	261, 279
BstDEI	CTNAG	1 cut(s)	453
BstF5I	GGATG	3 cut(s)	253, 281, 506
BstH2I	RGCGCY	1 cut(s)	330
BstHHI	GCGC	2 cut(s)	329, 387
BstKTI	GATC	1 cut(s)	159
BstMBI	GATC	1 cut(s)	156
BstMWI	GCNNNNNNNGC	3 cut(s)	34, 206, 494
BstNSI	RCATGY	2 cut(s)	425, 452
BstSLI	GKGCMC	2 cut(s)	104, 436
BstV1I	GCAGC	1 cut(s)	46
BsuRI	GGCC	2 cut(s)	102, 488
BtsCI	GGATG	3 cut(s)	253, 281, 506
BtsIMutI	CAGTG	1 cut(s)	351
Cac8I	GCNNGC	2 cut(s)	261, 279
CfoI	GCGC	2 cut(s)	329, 387
Cfr13I	GGNCC	2 cut(s)	100, 101
CviAII	CATG	5 cut(s)	286, 311, 422, 449, 593
CviJI	RGCY	6 cut(s)	102, 121, 200, 263, 406, 488
CviKI_1	RGCY	6 cut(s)	102, 121, 200, 263, 406, 488
DdeI	CTNAG	1 cut(s)	453
DpnI	GATC	1 cut(s)	158
DpnII	GATC	1 cut(s)	156
EaeI	YGGCCR	1 cut(s)	486
Eco24I	GRGCYC	1 cut(s)	104
Eco57I	CTGAAG	1 cut(s)	284
EcoO109I	RGGNCCY	1 cut(s)	100
EcoT38I	GRGCYC	1 cut(s)	104
FaeI	CATG	5 cut(s)	289, 314, 425, 452, 596
FatI	CATG	5 cut(s)	285, 310, 421, 448, 592
Fnu4HI	GCNGC	2 cut(s)	35, 486
FokI	GGATG	3 cut(s)	260, 268, 493
FriOI	GRGCYC	1 cut(s)	104
Fsp4HI	GCNGC	2 cut(s)	35, 486
GlaI	GCGC	2 cut(s)	328, 386
GluI	GCNGC	2 cut(s)	35, 486
HaeII	RGCGCY	1 cut(s)	330
HaeIII	GGCC	2 cut(s)	102, 488
HhaI	GCGC	2 cut(s)	329, 387
Hin1II	CATG	5 cut(s)	289, 314, 425, 452, 596
Hin6I	GCGC	2 cut(s)	327, 385
HinP1I	GCGC	2 cut(s)	327, 385
HinfI	GANTC	1 cut(s)	566
HphI	GGTGA	2 cut(s)	61, 377
Hpy166II	GTNNAC	1 cut(s)	434
Hpy188I	TCNGA	1 cut(s)	303
Hpy188III	TCNNGA	5 cut(s)	57, 95, 203, 466, 563
Hpy8I	GTNNAC	1 cut(s)	434
HpyCH4III	ACNGT	1 cut(s)	394
HpyCH4IV	ACGT	1 cut(s)	223
HpyCH4V	TGCA	7 cut(s)	48, 179, 209, 281, 434, 442, 592
HpyF10VI	GCNNNNNNNGC	3 cut(s)	34, 206, 494
HpyF3I	CTNAG	1 cut(s)	453
HpySE526I	ACGT	1 cut(s)	223
Hsp92II	CATG	5 cut(s)	289, 314, 425, 452, 596
HspAI	GCGC	2 cut(s)	327, 385
Kzo9I	GATC	1 cut(s)	156
LmnI	GCTCC	1 cut(s)	126
LpnPI	CCDG	5 cut(s)	42, 103, 343, 450, 523
Lsp1109I	GCAGC	1 cut(s)	46
LweI	GCATC	3 cut(s)	196, 290, 451
MaeII	ACGT	1 cut(s)	223
MaeIII	GTNAC	1 cut(s)	584
MalI	GATC	1 cut(s)	158
MboI	GATC	1 cut(s)	156
MboII	GAAGA	4 cut(s)	492, 495, 550, 553
MhlI	GDGCHC	2 cut(s)	104, 436
MluCI	AATT	6 cut(s)	38, 75, 127, 135, 356, 556
MlyI	GAGTC	1 cut(s)	560
MnlI	CCTC	4 cut(s)	91, 192, 195, 420
MseI	TTAA	3 cut(s)	42, 411, 554
MslI	CAYNNNNRTG	2 cut(s)	246, 447
MwoI	GCNNNNNNNGC	3 cut(s)	34, 206, 494
NdeII	GATC	1 cut(s)	156
NlaIII	CATG	5 cut(s)	289, 314, 425, 452, 596
NlaIV	GGNNCC	2 cut(s)	102, 122
NspI	RCATGY	2 cut(s)	425, 452
PkrI	GCNGC	2 cut(s)	36, 487
PleI	GAGTC	1 cut(s)	560
PpsI	GAGTC	1 cut(s)	560
PspN4I	GGNNCC	2 cut(s)	102, 122
PspOMI	GGGCCC	1 cut(s)	100
PspPI	GGNCC	2 cut(s)	100, 101
RseI	CAYNNNNRTG	2 cut(s)	246, 447
SaqAI	TTAA	3 cut(s)	42, 411, 554
SatI	GCNGC	2 cut(s)	35, 486
Sau3AI	GATC	1 cut(s)	156
Sau96I	GGNCC	2 cut(s)	100, 101
SchI	GAGTC	1 cut(s)	560
SduI	GDGCHC	2 cut(s)	104, 436
SetI	ASST	6 cut(s)	184, 226, 265, 408, 439, 526
SfaNI	GCATC	3 cut(s)	196, 290, 451
SmiMI	CAYNNNNRTG	2 cut(s)	246, 447
SmlI	CTYRAG	2 cut(s)	95, 201
SmoI	CTYRAG	2 cut(s)	95, 201
Sse9I	AATT	6 cut(s)	38, 75, 127, 135, 356, 556
SsiI	CCGC	2 cut(s)	124, 485
TaaI	ACNGT	1 cut(s)	394
TaiI	ACGT	1 cut(s)	226
TaqI	TCGA	1 cut(s)	150
TasI	AATT	6 cut(s)	38, 75, 127, 135, 356, 556
TauI	GCSGC	1 cut(s)	488
Tru1I	TTAA	3 cut(s)	42, 411, 554
Tru9I	TTAA	3 cut(s)	42, 411, 554
TscAI	CASTG	1 cut(s)	358
TseI	GCWGC	1 cut(s)	34
TspDTI	ATGAA	5 cut(s)	99, 302, 335, 495, 609
TspRI	CASTG	1 cut(s)	358
VneI	GTGCAC	1 cut(s)	432
XapI	RAATTY	2 cut(s)	75, 556
XceI	RCATGY	2 cut(s)	425, 452

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