Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4D

Orthogroup ID

OG0002873

Physical Location & Seq

Genomic Coordinates Forward (+)

7252738 .. 7261607

Gene Structure 8870 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4DG044300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 792 bp

ATGACTTCTTTAATGTTTTGTTGGCATGCTTTTCTGATTTCAATTTTTGGGCTATTTGGGATTTGTAGGATTGTGCTTGGTAATGGCTGTGATTGTTTTGATTCAGCTCTGAGTTATTGGCTTTGGTTGCATGCCCTGAAAGGGAAGGGAAACGGGTTCTGGTTCCGCACCTACTGCCAAGAATTGGTTCTGGTTATGATGATCTCTGCATATGGTTCAGTTAATAGTGCATGTAATGGAGCCATATTAGGAGTTACGGACACATTAGTACTCCTAGCTGTGATGGCCAATGACTTTGCTATTGCCCAGTTTCGGTTTTTGGAGAGACTTTTGGTTGTCCATGGACATTGGTGCTATAAAAGGATTGCTCAGATGGCTGATGCTGCTGCTTCCAAGAATACTTCGACCATGACAAAGTCCTCTTCATCATCTCAGCCCAATCGTGGATCACAGATCTCTAAAGAGCTGAACGGACTCTATAGGAGCAGGTTGCACTTGCAGCCATGGACTGCCAGTGTCTTGATGTTGCAAAGCTTCAACTTCCTGCCACTGGATGGTGCTCATGGAGACTCCTCACAAGGGGTCATTTCCAAACAAGAAGTTATTGAATACTATATCAAAACCGTTCAAAGAGTTTTGGGCAATGACAAGGATGCTCAGATGTGTATATACAATGCTTCTTGGGATACTCATTTTGGCTTTTGCTGTGATGTTAATGATGAAACTTCCCAGAAGCTTGCACGTAAAATTCTTTCATTTTTACCCATGTTCAGTTCAATTGCTTGTTGCTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0005488 GO:0006139 GO:0006725 GO:0006807 GO:0006950 GO:0008150 GO:0008152 GO:0009266 GO:0009409 GO:0009451 GO:0009628 GO:0009987 GO:0016070 GO:0016071 GO:0016553 GO:0016554 GO:0016556 GO:0034641 GO:0043170 GO:0043412 GO:0044237 GO:0044238 GO:0046483 GO:0050896 GO:0071704 GO:0090304 GO:0097159 GO:1900865 GO:1900871 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

RRM_1

Protein Analysis

263

Amino Acids

29.36

Weight (kDa)

8.24

Isoelectric Point (pI)

30.03

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PhoLip_ATPase_C	PF16212	94 - 134	8.7e-15	Phospholipid-translocating P-type ATPase C-terminal
MORF_dom	PF21864	193 - 248	7.4e-21	Multiple organellar RNA editing factor 1, MORF domain

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: OG0002873)

Species	Orthologous Gene IDs
malus_domestica	MD15G1369000.v1.1
rosa_chinensis	RchiOBHm_Chr2g0158691 RchiOBHm_Chr3g0461771 RchiOBHm_Chr3g0477511 RchiOBHm_Chr4g0391611 RchiOBHm_Chr5g0060841 RchiOBHm_Chr5g0074511 RchiOBHm_Chr5g0074521 RchiOBHm_Chr6g0248211
rosa_laevigata	RLG00000001875 RLG00000032521
rosa_multiflora	Rmu_sc0001803.1_g000035 Rmu_sc0002942.1_g000044 Rmu_sc0005455.1_g000008 Rmu_sc0006619.1_g000001 Rmu_sc0015767.1_g000001 Rmu_sc0034909.1_g000001
rosa_roxburghii	Rroxscaffold_2G00094060 Rroxscaffold_2G00116020 Rroxscaffold_3G00235080 Rroxscaffold_5G00358150 Rroxscaffold_5G00359750
rosa_rugosa	Rorug05G0328100 Rorug05G0352400 Rorug07G0018800 Rorug07G0018900
rosa_samantha	Rh2AG426900 Rh2BG244900 Rh2BG245000 Rh2BG415100 Rh3BG245300 Rh3CG117000 Rh3CG370200 Rh3CG370300 Rh4DG044300 Rh5DG334900 Rh5DG403500 Rh6CG125700 Rh7CG192300

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	477
AccB7I	CCANNNNNTGG	2 cut(s)	184, 554
AciI	CCGC	1 cut(s)	166
AclWI	GGATC	1 cut(s)	454
AcoI	YGGCCR	1 cut(s)	285
AcsI	RAATTY	1 cut(s)	747
AfaI	GTAC	1 cut(s)	270
AfiI	CCNNNNNNNGG	7 cut(s)	141, 184, 312, 443, 550, 554, 579
AgsI	TTSAA	5 cut(s)	42, 538, 608, 629, 777
AjuI	GAANNNNNNNTTGG	2 cut(s)	171, 203
AluBI	AGCT	5 cut(s)	107, 278, 466, 534, 736
AluI	AGCT	5 cut(s)	107, 278, 466, 534, 736
Alw21I	GWGCWC	1 cut(s)	562
Alw26I	GTCTC	2 cut(s)	319, 561
AlwI	GGATC	1 cut(s)	454
AoxI	GGCC	1 cut(s)	285
ApeKI	GCWGC	3 cut(s)	383, 386, 499
ApoI	RAATTY	1 cut(s)	747
Asp700I	GAANNNNTTC	1 cut(s)	186
BalI	TGGCCA	1 cut(s)	287
Bbv12I	GWGCWC	1 cut(s)	562
BbvI	GCAGC	3 cut(s)	370, 373, 511
BccI	CCATC	3 cut(s)	277, 367, 548
BciVI	GTATCC	1 cut(s)	679
BcoDI	GTCTC	2 cut(s)	319, 561
BfaI	CTAG	2 cut(s)	275, 790
BfmI	CTRYAG	1 cut(s)	478
BfuAI	ACCTGC	1 cut(s)	477
BfuI	GTATCC	1 cut(s)	679
BglII	AGATCT	1 cut(s)	453
BisI	GCNGC	3 cut(s)	384, 387, 500
BlsI	GCNGC	3 cut(s)	385, 388, 501
BmcAI	AGTACT	1 cut(s)	270
BmiI	GGNNCC	2 cut(s)	164, 241
BmrI	ACTGGG	1 cut(s)	301
BmsI	GCATC	2 cut(s)	370, 643
BmuI	ACTGGG	1 cut(s)	301
BsaAI	YACGTR	1 cut(s)	743
BsaJI	CCNNGG	2 cut(s)	340, 503
Bsc4I	CCNNNNNNNGG	7 cut(s)	141, 184, 312, 443, 550, 554, 579
Bse1I	ACTGG	3 cut(s)	307, 513, 555
Bse3DI	GCAATG	1 cut(s)	649
BseDI	CCNNGG	2 cut(s)	340, 503
BseGI	GGATG	2 cut(s)	559, 658
BseLI	CCNNNNNNNGG	7 cut(s)	141, 184, 312, 443, 550, 554, 579
BseMI	GCAATG	1 cut(s)	649
BseMII	CTCAG	4 cut(s)	101, 383, 446, 671
BseNI	ACTGG	3 cut(s)	307, 513, 555
BseRI	GAGGAG	1 cut(s)	562
BseXI	GCAGC	3 cut(s)	370, 373, 511
BshFI	GGCC	1 cut(s)	287
BsiHKAI	GWGCWC	1 cut(s)	562
BslI	CCNNNNNNNGG	7 cut(s)	141, 184, 312, 443, 550, 554, 579
BsmAI	GTCTC	2 cut(s)	319, 561
BsnI	GGCC	1 cut(s)	287
Bsp1286I	GDGCHC	1 cut(s)	562
Bsp143I	GATC	3 cut(s)	201, 446, 453
Bsp19I	CCATGG	2 cut(s)	340, 503
BspACI	CCGC	1 cut(s)	166
BspANI	GGCC	1 cut(s)	287
BspCNI	CTCAG	4 cut(s)	102, 382, 445, 670
BspLI	GGNNCC	2 cut(s)	164, 241
BspMI	ACCTGC	1 cut(s)	477
BspPI	GGATC	1 cut(s)	454
BsrDI	GCAATG	1 cut(s)	649
BsrI	ACTGG	3 cut(s)	307, 513, 555
BssECI	CCNNGG	2 cut(s)	340, 503
BssMI	GATC	3 cut(s)	201, 446, 453
BssT1I	CCWWGG	2 cut(s)	340, 503
Bst4CI	ACNGT	1 cut(s)	625
Bst6I	CTCTTC	1 cut(s)	427
BstAPI	GCANNNNNTGC	1 cut(s)	174
BstBAI	YACGTR	1 cut(s)	743
BstC8I	GCNNGC	3 cut(s)	27, 132, 738
BstDEI	CTNAG	4 cut(s)	110, 369, 432, 657
BstDSI	CCRYGG	2 cut(s)	340, 503
BstF5I	GGATG	2 cut(s)	559, 658
BstKTI	GATC	3 cut(s)	204, 449, 456
BstMAI	GTCTC	2 cut(s)	319, 561
BstMBI	GATC	3 cut(s)	201, 446, 453
BstMWI	GCNNNNNNNGC	6 cut(s)	127, 174, 284, 374, 383, 499
BstNSI	RCATGY	3 cut(s)	29, 134, 234
BstSFI	CTRYAG	1 cut(s)	478
BstV1I	GCAGC	3 cut(s)	370, 373, 511
BstX2I	RGATCY	1 cut(s)	453
BstYI	RGATCY	1 cut(s)	453
BsuI	GTATCC	1 cut(s)	679
BsuRI	GGCC	1 cut(s)	287
BtgI	CCRYGG	2 cut(s)	340, 503
BtsCI	GGATG	2 cut(s)	559, 658
BtsIMutI	CAGTG	2 cut(s)	520, 548
BveI	ACCTGC	1 cut(s)	477
Cac8I	GCNNGC	3 cut(s)	27, 132, 738
Csp6I	GTAC	1 cut(s)	269
CviAII	CATG	8 cut(s)	26, 131, 231, 341, 409, 504, 563, 766
CviQI	GTAC	1 cut(s)	269
DdeI	CTNAG	4 cut(s)	110, 369, 432, 657
DpnI	GATC	3 cut(s)	203, 448, 455
DpnII	GATC	3 cut(s)	201, 446, 453
EaeI	YGGCCR	1 cut(s)	285
Eam1104I	CTCTTC	1 cut(s)	427
EarI	CTCTTC	1 cut(s)	427
Eco130I	CCWWGG	2 cut(s)	340, 503
EcoT14I	CCWWGG	2 cut(s)	340, 503
ErhI	CCWWGG	2 cut(s)	340, 503
FaeI	CATG	8 cut(s)	29, 134, 234, 344, 412, 507, 566, 769
FatI	CATG	8 cut(s)	25, 130, 230, 340, 408, 503, 562, 765
FauNDI	CATATG	1 cut(s)	211
Fnu4HI	GCNGC	3 cut(s)	384, 387, 500
FokI	GGATG	2 cut(s)	566, 665
Fsp4HI	GCNGC	3 cut(s)	384, 387, 500
FspBI	CTAG	2 cut(s)	275, 790
GluI	GCNGC	3 cut(s)	384, 387, 500
HaeIII	GGCC	1 cut(s)	287
Hin1II	CATG	8 cut(s)	29, 134, 234, 344, 412, 507, 566, 769
HindIII	AAGCTT	2 cut(s)	532, 734
HinfI	GANTC	3 cut(s)	101, 474, 569
Hpy188I	TCNGA	4 cut(s)	36, 111, 372, 660
Hpy188III	TCNNGA	1 cut(s)	520
HpyAV	CCTTC	1 cut(s)	139
HpyCH4III	ACNGT	1 cut(s)	625
HpyCH4IV	ACGT	1 cut(s)	742
HpyCH4V	TGCA	7 cut(s)	130, 209, 230, 493, 499, 529, 740
HpyF10VI	GCNNNNNNNGC	6 cut(s)	127, 174, 284, 374, 383, 499
HpyF3I	CTNAG	4 cut(s)	110, 369, 432, 657
HpySE526I	ACGT	1 cut(s)	742
Hsp92II	CATG	8 cut(s)	29, 134, 234, 344, 412, 507, 566, 769
Kzo9I	GATC	3 cut(s)	201, 446, 453
LmnI	GCTCC	2 cut(s)	239, 483
LpnPI	CCDG	9 cut(s)	145, 149, 176, 320, 472, 526, 536, 557, 743
Lsp1109I	GCAGC	3 cut(s)	370, 373, 511
LweI	GCATC	2 cut(s)	370, 643
MaeI	CTAG	2 cut(s)	275, 790
MaeII	ACGT	1 cut(s)	742
MaeIII	GTNAC	1 cut(s)	253
MalI	GATC	3 cut(s)	203, 448, 455
MboI	GATC	3 cut(s)	201, 446, 453
MboII	GAAGA	1 cut(s)	414
MfeI	CAATTG	1 cut(s)	777
MflI	RGATCY	1 cut(s)	453
MhlI	GDGCHC	1 cut(s)	562
MlsI	TGGCCA	1 cut(s)	287
MluCI	AATT	4 cut(s)	42, 182, 747, 777
MluNI	TGGCCA	1 cut(s)	287
MlyI	GAGTC	2 cut(s)	468, 563
MnlI	CCTC	2 cut(s)	430, 583
Mox20I	TGGCCA	1 cut(s)	287
MroXI	GAANNNNTTC	1 cut(s)	186
MscI	TGGCCA	1 cut(s)	287
MseI	TTAA	3 cut(s)	11, 222, 714
Msp20I	TGGCCA	1 cut(s)	287
MunI	CAATTG	1 cut(s)	777
MwoI	GCNNNNNNNGC	6 cut(s)	127, 174, 284, 374, 383, 499
NcoI	CCATGG	2 cut(s)	340, 503
NdeI	CATATG	1 cut(s)	211
NdeII	GATC	3 cut(s)	201, 446, 453
NlaIII	CATG	8 cut(s)	29, 134, 234, 344, 412, 507, 566, 769
NlaIV	GGNNCC	2 cut(s)	164, 241
NspI	RCATGY	3 cut(s)	29, 134, 234
PaeI	GCATGC	2 cut(s)	29, 134
PdmI	GAANNNNTTC	1 cut(s)	186
PfeI	GAWTC	1 cut(s)	101
PflFI	GACNNNGTC	1 cut(s)	415
PflMI	CCANNNNNTGG	2 cut(s)	184, 554
PkrI	GCNGC	3 cut(s)	385, 388, 501
PleI	GAGTC	2 cut(s)	468, 563
PpsI	GAGTC	2 cut(s)	468, 563
Ppu21I	YACGTR	1 cut(s)	743
PspN4I	GGNNCC	2 cut(s)	164, 241
PsuI	RGATCY	1 cut(s)	453
PsyI	GACNNNGTC	1 cut(s)	415
RsaI	GTAC	1 cut(s)	270
RsaNI	GTAC	1 cut(s)	269
SaqAI	TTAA	3 cut(s)	11, 222, 714
SatI	GCNGC	3 cut(s)	384, 387, 500
Sau3AI	GATC	3 cut(s)	201, 446, 453
ScaI	AGTACT	1 cut(s)	270
SchI	GAGTC	2 cut(s)	468, 563
SduI	GDGCHC	1 cut(s)	562
SetI	ASST	8 cut(s)	109, 173, 280, 468, 491, 536, 738, 745
SfaNI	GCATC	2 cut(s)	370, 643
SfcI	CTRYAG	1 cut(s)	478
SphI	GCATGC	2 cut(s)	29, 134
Sse9I	AATT	4 cut(s)	42, 182, 747, 777
SsiI	CCGC	1 cut(s)	166
SspMI	CTAG	2 cut(s)	275, 790
StyI	CCWWGG	2 cut(s)	340, 503
TaaI	ACNGT	1 cut(s)	625
TaiI	ACGT	1 cut(s)	745
TaqI	TCGA	1 cut(s)	404
TasI	AATT	4 cut(s)	42, 182, 747, 777
TatI	WGTACW	1 cut(s)	268
TfiI	GAWTC	1 cut(s)	101
Tru1I	TTAA	3 cut(s)	11, 222, 714
Tru9I	TTAA	3 cut(s)	11, 222, 714
TscAI	CASTG	2 cut(s)	520, 555
TseI	GCWGC	3 cut(s)	383, 386, 499
TspDTI	ATGAA	3 cut(s)	414, 735, 744
TspGWI	ACGGA	2 cut(s)	272, 486
TspRI	CASTG	2 cut(s)	520, 555
Tth111I	GACNNNGTC	1 cut(s)	415
Van91I	CCANNNNNTGG	2 cut(s)	184, 554
XapI	RAATTY	1 cut(s)	747
XceI	RCATGY	3 cut(s)	29, 134, 234
XmnI	GAANNNNTTC	1 cut(s)	186
XspI	CTAG	2 cut(s)	275, 790
ZrmI	AGTACT	1 cut(s)	270

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