Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4D

Orthogroup ID

OG0005559

Physical Location & Seq

Genomic Coordinates Forward (+)

9806581 .. 9820800

Gene Structure 14220 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4DG065100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 735 bp

ATGGCTTTCACTGGGTATTATTCTGAGCAAGTGTACCACTGCAACACATATTCAATGTCTGGAAATAATTCGTATTCATGGGATGCTCCTTCATGGTCAAAACAAGAACCATATAATTGCAACATGGGATGGGTAGATCATTCCAACTACTCATGGTCTGAAAATTCCTATTATGAAACTGCACAGTGGTCGTATCCCTCTAGCAATGTCCCATCATCCTATCAAGCTCCAATCTATTCGCAAGAAGATCCTACTATAAAGGAGATGGTAGTTGAACTATTGAAGAGATCAGAAAAGTTTGATCAAGAGGTTGCAATTCTTAAACAGGATCAATCAAAGCTTGAAGAAAGGCAATCAAAACTTGCGCAAACGTTATCGGAAATTGAACTTCAAATTTTGCGGCTTGCTAATGTCTGGGAGGAAGAGGACGTAATGCTTCCTGCTAAACCAGAAGAATGGTTTGATTTTCAGCTCGATGAGGAAGATGAATATTTTGAGCCAAACATGAGAAAAAGAACTATTGATGATAAAGCGAGCACCGACCTTCCTCCTTCTATTAAAGTTCCTACAAAGTTATGCGCTGACAAGCTGGAGAATAAAGAACCAAAGAATGAAGCTGTGAGAACTCATACATCGGATGCTCTTGATGAATTCACCACTATGAATTCTCACCAGATGATCAGACCCATTACAGATATCAAAACTCCAACCCCATCTGGAACTAGAATTCTCTAA

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

Retrotrans_gag

Protein Analysis

244

Amino Acids

28.44

Weight (kDa)

4.61

Isoelectric Point (pI)

57.19

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

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Align Labels (Cladogram)

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Tree File

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Publication-ready

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Orthologous Genes (Group: OG0005559)

Species	Orthologous Gene IDs
rosa_chinensis	RchiOBHm_Chr2g0101141 RchiOBHm_Chr2g0146981 RchiOBHm_Chr6g0270591
rosa_laevigata	RLG00000006277 RLG00000008803
rosa_multiflora	Rmu_sc0000082.1_g000035 Rmu_sc0026180.1_g000001
rosa_roxburghii	Rroxscaffold_1G00045610 Rroxscaffold_2G00076120 Rroxscaffold_2G00139700 Rroxscaffold_3G00249380 Rroxscaffold_5G00347260 Rroxscaffold_5G00366700 Rroxscaffold_6G00413360
rosa_samantha	Rh1BG176700 Rh1DG115600 Rh1DG206200 Rh2BG631300 Rh3DG307000 Rh4BG059000 Rh4BG132000 Rh4BG315900 Rh4CG331400 Rh4DG065100 Rh5DG576200 Rh7BG306600 Rh7BG306700 Rh7BG307100 Rh7CG322600

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc16I	TGCGCA	1 cut(s)	366
AciI	CCGC	1 cut(s)	400
AclI	AACGTT	1 cut(s)	371
AclWI	GGATC	2 cut(s)	242, 336
AcsI	RAATTY	5 cut(s)	163, 393, 650, 664, 726
AfaI	GTAC	1 cut(s)	35
AgsI	TTSAA	6 cut(s)	54, 275, 283, 344, 386, 392
AluBI	AGCT	5 cut(s)	227, 340, 472, 589, 617
AluI	AGCT	5 cut(s)	227, 340, 472, 589, 617
Alw21I	GWGCWC	1 cut(s)	539
AlwI	GGATC	2 cut(s)	242, 336
ApoI	RAATTY	5 cut(s)	163, 393, 650, 664, 726
Asp700I	GAANNNNTTC	1 cut(s)	67
AspLEI	GCGC	2 cut(s)	367, 581
AsuHPI	GGTGA	2 cut(s)	646, 662
Bbv12I	GWGCWC	1 cut(s)	539
BccI	CCATC	4 cut(s)	123, 220, 259, 721
BcgI	CGANNNNNNTGC	2 cut(s)	171, 205
BciVI	GTATCC	1 cut(s)	204
BclI	TGATCA	2 cut(s)	301, 678
BfaI	CTAG	2 cut(s)	201, 723
BfuI	GTATCC	1 cut(s)	204
BisI	GCNGC	1 cut(s)	401
BlsI	GCNGC	1 cut(s)	402
BmrI	ACTGGG	1 cut(s)	21
BmsI	GCATC	2 cut(s)	73, 628
BmuI	ACTGGG	1 cut(s)	21
BpmI	CTGGAG	1 cut(s)	611
Bse1I	ACTGG	1 cut(s)	16
Bse3DI	GCAATG	1 cut(s)	211
BseGI	GGATG	4 cut(s)	88, 134, 215, 643
BseMI	GCAATG	1 cut(s)	211
BseMII	CTCAG	1 cut(s)	15
BseNI	ACTGG	1 cut(s)	16
BsgI	GTGCAG	1 cut(s)	165
BsiHKAI	GWGCWC	1 cut(s)	539
BslFI	GGGAC	1 cut(s)	194
BsmFI	GGGAC	1 cut(s)	194
Bsp1286I	GDGCHC	1 cut(s)	539
Bsp143I	GATC	6 cut(s)	136, 247, 287, 301, 328, 678
BspACI	CCGC	1 cut(s)	400
BspCNI	CTCAG	1 cut(s)	16
BspPI	GGATC	2 cut(s)	242, 336
BsrDI	GCAATG	1 cut(s)	211
BsrI	ACTGG	1 cut(s)	16
BssMI	GATC	6 cut(s)	136, 247, 287, 301, 328, 678
Bst4CI	ACNGT	1 cut(s)	186
Bst6I	CTCTTC	2 cut(s)	278, 417
BstC8I	GCNNGC	2 cut(s)	405, 535
BstDEI	CTNAG	1 cut(s)	24
BstF5I	GGATG	4 cut(s)	88, 134, 215, 643
BstHHI	GCGC	2 cut(s)	367, 581
BstKTI	GATC	6 cut(s)	139, 250, 290, 304, 331, 681
BstMBI	GATC	6 cut(s)	136, 247, 287, 301, 328, 678
BstX2I	RGATCY	1 cut(s)	247
BstXI	CCANNNNNNTGG	1 cut(s)	456
BstYI	RGATCY	1 cut(s)	247
BsuI	GTATCC	1 cut(s)	204
BtsCI	GGATG	4 cut(s)	88, 134, 215, 643
BtsI	GCAGTG	1 cut(s)	37
BtsIMutI	CAGTG	3 cut(s)	9, 37, 191
Cac8I	GCNNGC	2 cut(s)	405, 535
CfoI	GCGC	2 cut(s)	367, 581
Csp6I	GTAC	1 cut(s)	34
CviAII	CATG	5 cut(s)	78, 93, 124, 153, 505
CviJI	RGCY	8 cut(s)	5, 227, 340, 403, 472, 499, 589, 617
CviKI_1	RGCY	8 cut(s)	5, 227, 340, 403, 472, 499, 589, 617
CviQI	GTAC	1 cut(s)	34
DdeI	CTNAG	1 cut(s)	24
DpnI	GATC	6 cut(s)	138, 249, 289, 303, 330, 680
DpnII	GATC	6 cut(s)	136, 247, 287, 301, 328, 678
Eam1104I	CTCTTC	2 cut(s)	278, 417
EarI	CTCTTC	2 cut(s)	278, 417
Eco32I	GATATC	1 cut(s)	697
EcoRI	GAATTC	3 cut(s)	650, 664, 726
EcoRV	GATATC	1 cut(s)	697
FaeI	CATG	5 cut(s)	81, 96, 127, 156, 508
FaqI	GGGAC	1 cut(s)	194
FatI	CATG	5 cut(s)	77, 92, 123, 152, 504
FbaI	TGATCA	2 cut(s)	301, 678
Fnu4HI	GCNGC	1 cut(s)	401
FokI	GGATG	4 cut(s)	95, 141, 202, 650
Fsp4HI	GCNGC	1 cut(s)	401
FspBI	CTAG	2 cut(s)	201, 723
FspI	TGCGCA	1 cut(s)	366
GlaI	GCGC	2 cut(s)	366, 580
GluI	GCNGC	1 cut(s)	401
GsuI	CTGGAG	1 cut(s)	611
HhaI	GCGC	2 cut(s)	367, 581
Hin1II	CATG	5 cut(s)	81, 96, 127, 156, 508
Hin6I	GCGC	2 cut(s)	365, 579
HinP1I	GCGC	2 cut(s)	365, 579
HindIII	AAGCTT	1 cut(s)	338
HphI	GGTGA	2 cut(s)	646, 662
Hpy166II	GTNNAC	1 cut(s)	34
Hpy188I	TCNGA	6 cut(s)	25, 160, 292, 379, 637, 683
Hpy188III	TCNNGA	4 cut(s)	60, 305, 644, 717
Hpy8I	GTNNAC	1 cut(s)	34
HpyAV	CCTTC	3 cut(s)	99, 554, 561
HpyCH4III	ACNGT	1 cut(s)	186
HpyCH4IV	ACGT	2 cut(s)	371, 429
HpyCH4V	TGCA	4 cut(s)	42, 120, 182, 314
HpyF3I	CTNAG	1 cut(s)	24
HpySE526I	ACGT	2 cut(s)	371, 429
Hsp92II	CATG	5 cut(s)	81, 96, 127, 156, 508
HspAI	GCGC	2 cut(s)	365, 579
Ksp22I	TGATCA	2 cut(s)	301, 678
Kzo9I	GATC	6 cut(s)	136, 247, 287, 301, 328, 678
LmnI	GCTCC	2 cut(s)	91, 232
LpnPI	CCDG	8 cut(s)	45, 311, 400, 453, 462, 575, 686, 702
LweI	GCATC	2 cut(s)	73, 628
MaeI	CTAG	2 cut(s)	201, 723
MaeII	ACGT	2 cut(s)	371, 429
MalI	GATC	6 cut(s)	138, 249, 289, 303, 330, 680
MboI	GATC	6 cut(s)	136, 247, 287, 301, 328, 678
MboII	GAAGA	6 cut(s)	257, 295, 356, 434, 464, 494
MflI	RGATCY	1 cut(s)	247
MhlI	GDGCHC	1 cut(s)	539
MluCI	AATT	9 cut(s)	67, 115, 163, 315, 381, 393, 650, 664, 726
MmeI	TCCRAC	2 cut(s)	168, 731
MnlI	CCTC	6 cut(s)	208, 301, 412, 418, 472, 558
MroXI	GAANNNNTTC	1 cut(s)	67
MseI	TTAA	2 cut(s)	321, 558
MslI	CAYNNNNRTG	1 cut(s)	659
NdeII	GATC	6 cut(s)	136, 247, 287, 301, 328, 678
NlaIII	CATG	5 cut(s)	81, 96, 127, 156, 508
NsbI	TGCGCA	1 cut(s)	366
PdmI	GAANNNNTTC	1 cut(s)	67
PkrI	GCNGC	1 cut(s)	402
Psp1406I	AACGTT	1 cut(s)	371
PsuI	RGATCY	1 cut(s)	247
RsaI	GTAC	1 cut(s)	35
RsaNI	GTAC	1 cut(s)	34
RseI	CAYNNNNRTG	1 cut(s)	659
SaqAI	TTAA	2 cut(s)	321, 558
SatI	GCNGC	1 cut(s)	401
Sau3AI	GATC	6 cut(s)	136, 247, 287, 301, 328, 678
SduI	GDGCHC	1 cut(s)	539
SetI	ASST	9 cut(s)	229, 312, 342, 374, 432, 474, 546, 591, 619
SfaNI	GCATC	2 cut(s)	73, 628
SmiMI	CAYNNNNRTG	1 cut(s)	659
Sse9I	AATT	9 cut(s)	67, 115, 163, 315, 381, 393, 650, 664, 726
SsiI	CCGC	1 cut(s)	400
SspI	AATATT	1 cut(s)	491
SspMI	CTAG	2 cut(s)	201, 723
TaaI	ACNGT	1 cut(s)	186
TaiI	ACGT	2 cut(s)	374, 432
TaqI	TCGA	1 cut(s)	474
TasI	AATT	9 cut(s)	67, 115, 163, 315, 381, 393, 650, 664, 726
TauI	GCSGC	1 cut(s)	403
Tru1I	TTAA	2 cut(s)	321, 558
Tru9I	TTAA	2 cut(s)	321, 558
TscAI	CASTG	3 cut(s)	16, 44, 191
TspDTI	ATGAA	7 cut(s)	66, 81, 189, 501, 627, 663, 677
TspRI	CASTG	3 cut(s)	16, 44, 191
XapI	RAATTY	5 cut(s)	163, 393, 650, 664, 726
XmnI	GAANNNNTTC	1 cut(s)	67
XspI	CTAG	2 cut(s)	201, 723

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