Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4D

Orthogroup ID

OG0004854

Physical Location & Seq

Genomic Coordinates Reverse (-)

44117549 .. 44118163

Gene Structure 615 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4DG234100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 615 bp

ATGAGTCACCTGATCAATTCCATTGCCTCGTATCTTGAGAGAGCACTGAAATCAAATTCCAAGTCATATGTGACACAAAACAAAAAACTTCACTTGGCACTTGGTCTTGATCACACTCTACTGCATTCCACTTCACTCAAAAATTTGACGCCCCTAGAAGAATACTTGATCACCAAACTAGATTATCCATCTCTGCACGGTGATGTTTTCATGAATTCCATCATAATAACCAAGTTGAGGCCATTTGTGAGGACATTTCTAAAGGAAGCCAGTCAAATGTTTGAGATGCACATATACACAATGGGCAGTCGAGCTTACGCACTGCAAATGGCTGAGCTACTTGACCCTGAAAAAGAGTACTTCTTCACCTCCACCTCCAGTTCTAAAATAACATCGCGTGATGATCATAGCTCCCCAGGACAAAAGAAGTGTCTAAATCTTGTGCGCGGCTGTCAAAATTCTAATGTCTTGATCCTCGACGATATAAGAAACGCATGGACAAAGAAAGAAAAATCAGGACAATTTGATAGTAATGCAATAGTACTATTTCTTCAAATCCACTTGTCATCTCAATCATGTTACCGGTCAATCTCATGCCGAGTTAAGGACCGATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000428 GO:0003674 GO:0003824 GO:0004721 GO:0004722 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0006355 GO:0006357 GO:0006464 GO:0006470 GO:0006793 GO:0006796 GO:0006807 GO:0006950 GO:0006970 GO:0008022 GO:0008150 GO:0008152 GO:0008420 GO:0009628 GO:0009651 GO:0009889 GO:0009987 GO:0010468 GO:0010556 GO:0016311 GO:0016591 GO:0016787 GO:0016788 GO:0016791 GO:0019219 GO:0019222 GO:0019538 GO:0030880 GO:0031323 GO:0031326 GO:0031974 GO:0031981 GO:0032991 GO:0036211 GO:0042578 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0043412 GO:0044237 GO:0044238 GO:0044260 GO:0044267 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044464 GO:0050789 GO:0050794 GO:0050896 GO:0051171 GO:0051252 GO:0055029 GO:0060255 GO:0061695 GO:0065007 GO:0070013 GO:0070940 GO:0071704 GO:0080090 GO:0140096 GO:1901564 GO:1902494 GO:1903506 GO:1990234 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

BRCT NIF PTCB-BRCT

Protein Analysis

204

Amino Acids

23.33

Weight (kDa)

9.23

Isoelectric Point (pI)

43.84

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
NIF	PF03031	31 - 171	6.2e-19	NLI interacting factor-like phosphatase

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Image

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Publication-ready

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Orthologous Genes (Group: OG0004854)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_4g17821 FvH4_4g17830
rosa_chinensis	RchiOBHm_Chr4g0421781 RchiOBHm_Chr4g0421791 RchiOBHm_Chr4g0421881 RchiOBHm_Chr4g0421951 RchiOBHm_Chr5g0075131 RchiOBHm_Chr7g0189971
rosa_laevigata	RLG00000007651 RLG00000019705 RLG00000036532
rosa_multiflora	Rmu_co8181706.1_g000001 Rmu_sc0011516.1_g000006 Rmu_sc0030271.1_g000001 Rmu_ssc0000217.1_g000008
rosa_roxburghii	Rroxscaffold_1G00006490 Rroxscaffold_5G00364040 Rroxscaffold_7G00156710
rosa_rugosa	Rorug07G0129200
rosa_samantha	Rh2BG403800 Rh4BG238000 Rh4BG238100 Rh4BG238300 Rh4CG250000 Rh4CG250100 Rh4DG234100 Rh5DG527800 Rh6AG087100 Rh6AG514900 Rh7AG106900 Rh7DG110100

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	2 cut(s)	397, 447
AciI	CCGC	1 cut(s)	447
AclWI	GGATC	1 cut(s)	466
AcsI	RAATTY	4 cut(s)	55, 142, 214, 457
AcyI	GRCGYC	1 cut(s)	149
AfaI	GTAC	2 cut(s)	359, 543
AfiI	CCNNNNNNNGG	2 cut(s)	237, 604
AgeI	ACCGGT	1 cut(s)	582
AgsI	TTSAA	1 cut(s)	554
AjnI	CCWGG	1 cut(s)	415
AluBI	AGCT	3 cut(s)	314, 337, 411
AluI	AGCT	3 cut(s)	314, 337, 411
Alw21I	GWGCWC	1 cut(s)	46
AlwI	GGATC	1 cut(s)	466
AoxI	GGCC	1 cut(s)	239
ApoI	RAATTY	4 cut(s)	55, 142, 214, 457
ArsI	GACNNNNNNTTYG	4 cut(s)	47, 79, 415, 447
AsiGI	ACCGGT	1 cut(s)	582
AspLEI	GCGC	1 cut(s)	447
AspS9I	GGNCC	1 cut(s)	607
AsuHPI	GGTGA	3 cut(s)	163, 212, 358
AvaII	GGWCC	1 cut(s)	607
BarI	GAAGNNNNNNTAC	2 cut(s)	534, 566
Bbv12I	GWGCWC	1 cut(s)	46
BccI	CCATC	2 cut(s)	196, 227
BciT130I	CCWGG	1 cut(s)	417
BclI	TGATCA	4 cut(s)	12, 109, 168, 403
BfaI	CTAG	2 cut(s)	155, 179
BisI	GCNGC	1 cut(s)	448
BlpI	GCTNAGC	1 cut(s)	333
BlsI	GCNGC	1 cut(s)	449
BmcAI	AGTACT	2 cut(s)	359, 543
Bme1390I	CCNGG	1 cut(s)	417
Bme18I	GGWCC	1 cut(s)	607
BmgT120I	GGNCC	1 cut(s)	607
BmrFI	CCNGG	1 cut(s)	417
BmsI	GCATC	1 cut(s)	276
BpmI	CTGGAG	1 cut(s)	361
Bpu1102I	GCTNAGC	1 cut(s)	333
BpuEI	CTTGAG	1 cut(s)	56
BsaHI	GRCGYC	1 cut(s)	149
BsaJI	CCNNGG	1 cut(s)	415
BsaWI	WCCGGW	1 cut(s)	582
Bsc4I	CCNNNNNNNGG	2 cut(s)	237, 604
Bse118I	RCCGGY	1 cut(s)	582
Bse1I	ACTGG	2 cut(s)	270, 378
Bse3DI	GCAATG	1 cut(s)	21
BseBI	CCWGG	1 cut(s)	417
BseDI	CCNNGG	1 cut(s)	415
BseLI	CCNNNNNNNGG	2 cut(s)	237, 604
BseMI	GCAATG	1 cut(s)	21
BseMII	CTCAG	1 cut(s)	324
BseNI	ACTGG	2 cut(s)	270, 378
BsgI	GTGCAG	1 cut(s)	179
Bsh1236I	CGCG	2 cut(s)	397, 447
BshFI	GGCC	1 cut(s)	241
BshTI	ACCGGT	1 cut(s)	582
BsiHKAI	GWGCWC	1 cut(s)	46
BsiSI	CCGG	1 cut(s)	583
BslI	CCNNNNNNNGG	2 cut(s)	237, 604
BsmI	GAATGC	1 cut(s)	124
BsnI	GGCC	1 cut(s)	241
Bsp1286I	GDGCHC	1 cut(s)	46
Bsp143I	GATC	5 cut(s)	12, 109, 168, 403, 471
Bsp1720I	GCTNAGC	1 cut(s)	333
BspACI	CCGC	1 cut(s)	447
BspANI	GGCC	1 cut(s)	241
BspCNI	CTCAG	1 cut(s)	325
BspFNI	CGCG	2 cut(s)	397, 447
BspHI	TCATGA	1 cut(s)	210
BspPI	GGATC	1 cut(s)	466
BsrDI	GCAATG	1 cut(s)	21
BsrFI	RCCGGY	1 cut(s)	582
BsrI	ACTGG	2 cut(s)	270, 378
BssAI	RCCGGY	1 cut(s)	582
BssECI	CCNNGG	1 cut(s)	415
BssMI	GATC	5 cut(s)	12, 109, 168, 403, 471
BssNI	GRCGYC	1 cut(s)	149
Bst2UI	CCWGG	1 cut(s)	417
Bst4CI	ACNGT	1 cut(s)	200
BstACI	GRCGYC	1 cut(s)	149
BstDEI	CTNAG	1 cut(s)	333
BstFNI	CGCG	2 cut(s)	397, 447
BstHHI	GCGC	1 cut(s)	447
BstKTI	GATC	5 cut(s)	15, 112, 171, 406, 474
BstMBI	GATC	5 cut(s)	12, 109, 168, 403, 471
BstNI	CCWGG	1 cut(s)	417
BstSCI	CCNGG	1 cut(s)	415
BstUI	CGCG	2 cut(s)	397, 447
BsuRI	GGCC	1 cut(s)	241
BtgZI	GCGATG	1 cut(s)	378
BtsI	GCAGTG	1 cut(s)	320
BtsIMutI	CAGTG	2 cut(s)	44, 320
CciI	TCATGA	1 cut(s)	210
CfoI	GCGC	1 cut(s)	447
Cfr10I	RCCGGY	1 cut(s)	582
Cfr13I	GGNCC	1 cut(s)	607
CseI	GACGC	1 cut(s)	157
Csp6I	GTAC	2 cut(s)	358, 542
CspAI	ACCGGT	1 cut(s)	582
CviAII	CATG	4 cut(s)	211, 495, 576, 594
CviJI	RGCY	7 cut(s)	241, 269, 314, 332, 337, 411, 450
CviKI_1	RGCY	7 cut(s)	241, 269, 314, 332, 337, 411, 450
CviQI	GTAC	2 cut(s)	358, 542
DdeI	CTNAG	1 cut(s)	333
DpnI	GATC	5 cut(s)	14, 111, 170, 405, 473
DpnII	GATC	5 cut(s)	12, 109, 168, 403, 471
Eco47I	GGWCC	1 cut(s)	607
EcoRI	GAATTC	1 cut(s)	214
EcoRII	CCWGG	1 cut(s)	415
FaeI	CATG	4 cut(s)	214, 498, 579, 597
FatI	CATG	4 cut(s)	210, 494, 575, 593
FauNDI	CATATG	1 cut(s)	67
FbaI	TGATCA	4 cut(s)	12, 109, 168, 403
Fnu4HI	GCNGC	1 cut(s)	448
Fsp4HI	GCNGC	1 cut(s)	448
FspBI	CTAG	2 cut(s)	155, 179
GlaI	GCGC	1 cut(s)	446
GluI	GCNGC	1 cut(s)	448
GsuI	CTGGAG	1 cut(s)	361
HaeIII	GGCC	1 cut(s)	241
HapII	CCGG	1 cut(s)	583
HgaI	GACGC	1 cut(s)	157
HhaI	GCGC	1 cut(s)	447
Hin1I	GRCGYC	1 cut(s)	149
Hin1II	CATG	4 cut(s)	214, 498, 579, 597
Hin6I	GCGC	1 cut(s)	445
HinP1I	GCGC	1 cut(s)	445
HinfI	GANTC	1 cut(s)	4
HpaII	CCGG	1 cut(s)	583
HphI	GGTGA	3 cut(s)	163, 212, 358
Hpy188III	TCNNGA	5 cut(s)	35, 107, 211, 469, 516
Hpy99I	CGWCG	1 cut(s)	482
HpyCH4III	ACNGT	1 cut(s)	200
HpyCH4V	TGCA	5 cut(s)	124, 196, 289, 325, 536
HpyF3I	CTNAG	1 cut(s)	333
Hsp92I	GRCGYC	1 cut(s)	149
Hsp92II	CATG	4 cut(s)	214, 498, 579, 597
HspAI	GCGC	1 cut(s)	445
Ksp22I	TGATCA	4 cut(s)	12, 109, 168, 403
Kzo9I	GATC	5 cut(s)	12, 109, 168, 403, 471
LmnI	GCTCC	1 cut(s)	416
LpnPI	CCDG	8 cut(s)	23, 283, 360, 391, 402, 429, 501, 596
LweI	GCATC	1 cut(s)	276
MaeI	CTAG	2 cut(s)	155, 179
MaeIII	GTNAC	3 cut(s)	5, 70, 578
MalI	GATC	5 cut(s)	14, 111, 170, 405, 473
MboI	GATC	5 cut(s)	12, 109, 168, 403, 471
MboII	GAAGA	3 cut(s)	170, 355, 542
MhlI	GDGCHC	1 cut(s)	46
MluCI	AATT	6 cut(s)	16, 55, 142, 214, 457, 521
MlyI	GAGTC	1 cut(s)	13
MnlI	CCTC	6 cut(s)	37, 231, 243, 379, 385, 485
MseI	TTAA	1 cut(s)	603
MslI	CAYNNNNRTG	1 cut(s)	201
MspI	CCGG	1 cut(s)	583
MspR9I	CCNGG	1 cut(s)	417
Mva1269I	GAATGC	1 cut(s)	124
MvaI	CCWGG	1 cut(s)	417
MvnI	CGCG	2 cut(s)	397, 447
NdeI	CATATG	1 cut(s)	67
NdeII	GATC	5 cut(s)	12, 109, 168, 403, 471
NlaIII	CATG	4 cut(s)	214, 498, 579, 597
NmuCI	GTSAC	2 cut(s)	5, 70
PagI	TCATGA	1 cut(s)	210
PctI	GAATGC	1 cut(s)	124
PinAI	ACCGGT	1 cut(s)	582
PkrI	GCNGC	1 cut(s)	449
PleI	GAGTC	1 cut(s)	12
PpsI	GAGTC	1 cut(s)	12
Psp6I	CCWGG	1 cut(s)	415
PspGI	CCWGG	1 cut(s)	415
PspPI	GGNCC	1 cut(s)	607
RsaI	GTAC	2 cut(s)	359, 543
RsaNI	GTAC	2 cut(s)	358, 542
RseI	CAYNNNNRTG	1 cut(s)	201
SaqAI	TTAA	1 cut(s)	603
SatI	GCNGC	1 cut(s)	448
Sau3AI	GATC	5 cut(s)	12, 109, 168, 403, 471
Sau96I	GGNCC	1 cut(s)	607
ScaI	AGTACT	2 cut(s)	359, 543
SchI	GAGTC	1 cut(s)	13
ScrFI	CCNGG	1 cut(s)	417
SduI	GDGCHC	1 cut(s)	46
SetI	ASST	6 cut(s)	12, 316, 339, 371, 377, 413
SfaNI	GCATC	1 cut(s)	276
SinI	GGWCC	1 cut(s)	607
SmiMI	CAYNNNNRTG	1 cut(s)	201
SmlI	CTYRAG	1 cut(s)	35
SmoI	CTYRAG	1 cut(s)	35
Sse9I	AATT	6 cut(s)	16, 55, 142, 214, 457, 521
SsiI	CCGC	1 cut(s)	447
SspMI	CTAG	2 cut(s)	155, 179
StyD4I	CCNGG	1 cut(s)	415
TaaI	ACNGT	1 cut(s)	200
TaqI	TCGA	2 cut(s)	310, 477
TasI	AATT	6 cut(s)	16, 55, 142, 214, 457, 521
TatI	WGTACW	2 cut(s)	357, 541
TauI	GCSGC	1 cut(s)	450
Tru1I	TTAA	1 cut(s)	603
Tru9I	TTAA	1 cut(s)	603
TscAI	CASTG	2 cut(s)	51, 327
TseFI	GTSAC	2 cut(s)	5, 70
Tsp45I	GTSAC	2 cut(s)	5, 70
TspDTI	ATGAA	2 cut(s)	199, 227
TspRI	CASTG	2 cut(s)	51, 327
VpaK11BI	GGWCC	1 cut(s)	607
XapI	RAATTY	4 cut(s)	55, 142, 214, 457
XspI	CTAG	2 cut(s)	155, 179
ZrmI	AGTACT	2 cut(s)	359, 543

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