Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0002406

Physical Location & Seq

Genomic Coordinates Forward (+)

34090885 .. 34093472

Gene Structure 2588 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG278700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 606 bp

ATGGATAGCGGCTTGAGTGAGAGTTTGATCGGAGTGGCGCCACCACCACCACTATCGTCGGAGACGGCAAGCCAGCGATGGAGGAGATTGTGTGGCCTCCTCAAGAACAGCAAGCCAAGCAAGGAGGAGAAGTTCGGACTCGGTGTTGCAGTGCTGAGTATATATGCAAAATACCGATTTATCAACGGAATAAACAATCTAGATCTAGATAGTCAGGACGAGGAACAGACAGAGACAACAGAGGAAGCAAATGTTCCTAGCAGGTATTACTGTTATCAGTGTCGTCAAGTGGTCAGTGTCACTGTGGATGTCGAAATGACATGCCCTCTCGGCCATGGCGGCTGGATACAAGAATGTAGTACCGTTGGCCTACTCTATCTTACTATGCCATCAGAATCTGAGCATTCTGCTAGTGATTCTGATGGACAGGGCACCATTCTGATCCATCCTTCCAGTCCAACTGTCATAGACATTGTCGAGGACAGCTATGGTTCAGATCCCAACCCCAACAGGTCCCCTTTTCATAGCACTGGTTTGTATGATTACAACAACTATGACGACTCACACCAGGCAACGGTAATGTCCAAATTTCACAAGCATAACTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001101 GO:0003674 GO:0003700 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005886 GO:0006355 GO:0006950 GO:0006979 GO:0007154 GO:0007165 GO:0007275 GO:0007568 GO:0008150 GO:0008270 GO:0009719 GO:0009725 GO:0009753 GO:0009755 GO:0009867 GO:0009889 GO:0009987 GO:0010033 GO:0010150 GO:0010468 GO:0010556 GO:0016020 GO:0019219 GO:0019222 GO:0023052 GO:0031323 GO:0031326 GO:0032501 GO:0032502 GO:0032870 GO:0042221 GO:0043167 GO:0043169 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044464 GO:0046872 GO:0046914 GO:0048366 GO:0048367 GO:0048731 GO:0048827 GO:0048856 GO:0050789 GO:0050794 GO:0050896 GO:0051171 GO:0051252 GO:0051716 GO:0060255 GO:0065007 GO:0070887 GO:0071229 GO:0071310 GO:0071395 GO:0071495 GO:0071944 GO:0080090 GO:0090693 GO:0099402 GO:0140110 GO:1901700 GO:1901701 GO:1903506 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

zf-CCCH

Protein Analysis

201

Amino Acids

22.23

Weight (kDa)

4.79

Isoelectric Point (pI)

66.98

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

Style Settings

Font Size (px)

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0002406)

Species	Orthologous Gene IDs
malus_domestica	MD11G1214900.v1.1 MD11G1217900.v1.1 MD11G1218100.v1.1
pyrus_communis	pycom11g19170 pycom11g19190
rosa_chinensis	RchiOBHm_Chr5g0039451 RchiOBHm_Chr5g0039471
rosa_laevigata	RLG00000033916 RLG00000033918 RLG00000033920 RLG00000033921
rosa_multiflora	Rmu_sc0001204.1_g000002 Rmu_sc0001204.1_g000020 Rmu_ssc0000400.1_g000036 Rmu_ssc0000400.1_g000064
rosa_roxburghii	Rroxscaffold_1G00040590 Rroxscaffold_1G00040650 Rroxscaffold_1G00040670 Rroxscaffold_1G00040680 Rroxscaffold_1G00040700 Rroxscaffold_1G00041680 Rroxscaffold_1G00041690 Rroxscaffold_1G00041700 Rroxscaffold_1G00041750
rosa_rugosa	Rorug05G0179200 Rorug05G0179300 Rorug05G0179400 Rorug05G0179500 Rorug05G0179700 Rorug05G0179800
rosa_samantha	Rh5AG266100 Rh5AG266200 Rh5AG266500 Rh5AG266700 Rh5AG267000 Rh5BG270800 Rh5CG303600 Rh5DG278600 Rh5DG278700
rosa_wichuraiana	Rw0G005680 Rw5G024940 Rw5G024950

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	252
AccB1I	GGYRCC	2 cut(s)	37, 431
AciI	CCGC	2 cut(s)	9, 339
AclWI	GGATC	2 cut(s)	436, 491
AcoI	YGGCCR	1 cut(s)	331
AcsI	RAATTY	1 cut(s)	587
AcyI	GRCGYC	1 cut(s)	38
AfaI	GTAC	1 cut(s)	361
AfiI	CCNNNNNNNGG	1 cut(s)	574
AjnI	CCWGG	1 cut(s)	567
AloI	GAACNNNNNNTCC	2 cut(s)	116, 148
AluBI	AGCT	1 cut(s)	486
AluI	AGCT	1 cut(s)	486
Alw26I	GTCTC	2 cut(s)	56, 227
AlwI	GGATC	2 cut(s)	436, 491
AlwNI	CAGNNNCTG	1 cut(s)	398
AoxI	GGCC	3 cut(s)	94, 331, 367
ApoI	RAATTY	1 cut(s)	587
AspLEI	GCGC	1 cut(s)	40
AspS9I	GGNCC	1 cut(s)	513
AvaII	GGWCC	1 cut(s)	513
BaeGI	GKGCMC	1 cut(s)	434
BanI	GGYRCC	2 cut(s)	37, 431
BccI	CCATC	4 cut(s)	72, 397, 416, 453
BceAI	ACGGC	1 cut(s)	81
BciT130I	CCWGG	1 cut(s)	569
BciVI	GTATCC	1 cut(s)	339
BcoDI	GTCTC	2 cut(s)	56, 227
BfaI	CTAG	4 cut(s)	200, 206, 258, 411
BfoI	RGCGCY	1 cut(s)	41
BfuAI	ACCTGC	1 cut(s)	252
BfuI	GTATCC	1 cut(s)	339
BglI	GCCNNNNNGGC	2 cut(s)	330, 339
BglII	AGATCT	1 cut(s)	202
BisI	GCNGC	2 cut(s)	10, 340
BlsI	GCNGC	2 cut(s)	11, 341
Bme1390I	CCNGG	1 cut(s)	569
Bme18I	GGWCC	1 cut(s)	513
BmgT120I	GGNCC	1 cut(s)	513
BmiI	GGNNCC	3 cut(s)	39, 433, 515
BmrFI	CCNGG	1 cut(s)	569
BpuEI	CTTGAG	2 cut(s)	34, 86
BsaHI	GRCGYC	1 cut(s)	38
BsaJI	CCNNGG	1 cut(s)	334
BsaXI	ACNNNNNCTCC	4 cut(s)	76, 106, 116, 146
Bsc4I	CCNNNNNNNGG	1 cut(s)	574
Bse1I	ACTGG	2 cut(s)	453, 535
BseBI	CCWGG	1 cut(s)	569
BseDI	CCNNGG	1 cut(s)	334
BseGI	GGATG	2 cut(s)	313, 445
BseLI	CCNNNNNNNGG	1 cut(s)	574
BseMII	CTCAG	2 cut(s)	146, 390
BseNI	ACTGG	2 cut(s)	453, 535
BseRI	GAGGAG	3 cut(s)	89, 97, 140
BseSI	GKGCMC	1 cut(s)	434
BshFI	GGCC	3 cut(s)	96, 333, 369
BshNI	GGYRCC	2 cut(s)	37, 431
BslFI	GGGAC	1 cut(s)	499
BslI	CCNNNNNNNGG	1 cut(s)	574
BsmAI	GTCTC	2 cut(s)	56, 227
BsmBI	CGTCTC	1 cut(s)	56
BsmFI	GGGAC	1 cut(s)	499
BsmI	GAATGC	1 cut(s)	403
BsnI	GGCC	3 cut(s)	96, 333, 369
Bsp1286I	GDGCHC	1 cut(s)	434
Bsp143I	GATC	4 cut(s)	27, 202, 441, 496
Bsp19I	CCATGG	1 cut(s)	334
BspACI	CCGC	2 cut(s)	9, 339
BspANI	GGCC	3 cut(s)	96, 333, 369
BspCNI	CTCAG	2 cut(s)	147, 391
BspLI	GGNNCC	3 cut(s)	39, 433, 515
BspMI	ACCTGC	1 cut(s)	252
BspPI	GGATC	2 cut(s)	436, 491
BspT107I	GGYRCC	2 cut(s)	37, 431
BsrI	ACTGG	2 cut(s)	453, 535
BssECI	CCNNGG	1 cut(s)	334
BssMI	GATC	4 cut(s)	27, 202, 441, 496
BssNI	GRCGYC	1 cut(s)	38
BssT1I	CCWWGG	1 cut(s)	334
Bst2UI	CCWGG	1 cut(s)	569
Bst4CI	ACNGT	5 cut(s)	272, 304, 364, 463, 577
BstACI	GRCGYC	1 cut(s)	38
BstC8I	GCNNGC	3 cut(s)	70, 74, 113
BstDEI	CTNAG	2 cut(s)	155, 399
BstDSI	CCRYGG	1 cut(s)	334
BstF5I	GGATG	2 cut(s)	313, 445
BstH2I	RGCGCY	1 cut(s)	41
BstHHI	GCGC	1 cut(s)	40
BstKTI	GATC	4 cut(s)	30, 205, 444, 499
BstMAI	GTCTC	2 cut(s)	56, 227
BstMBI	GATC	4 cut(s)	27, 202, 441, 496
BstMWI	GCNNNNNNNGC	3 cut(s)	117, 330, 339
BstNI	CCWGG	1 cut(s)	569
BstNSI	RCATGY	1 cut(s)	324
BstSCI	CCNGG	1 cut(s)	567
BstSLI	GKGCMC	1 cut(s)	434
BstX2I	RGATCY	2 cut(s)	202, 496
BstYI	RGATCY	2 cut(s)	202, 496
BsuI	GTATCC	1 cut(s)	339
BsuRI	GGCC	3 cut(s)	96, 333, 369
BtgI	CCRYGG	1 cut(s)	334
BtgZI	GCGATG	1 cut(s)	91
BtsCI	GGATG	2 cut(s)	313, 445
BtsI	GCAGTG	1 cut(s)	156
BtsIMutI	CAGTG	5 cut(s)	156, 284, 300, 301, 528
BveI	ACCTGC	1 cut(s)	252
Cac8I	GCNNGC	3 cut(s)	70, 74, 113
CaiI	CAGNNNCTG	1 cut(s)	398
CfoI	GCGC	1 cut(s)	40
Cfr13I	GGNCC	1 cut(s)	513
Csp6I	GTAC	1 cut(s)	360
CviAII	CATG	2 cut(s)	321, 335
CviJI	RGCY	8 cut(s)	12, 72, 96, 115, 333, 342, 369, 486
CviKI_1	RGCY	8 cut(s)	12, 72, 96, 115, 333, 342, 369, 486
CviQI	GTAC	1 cut(s)	360
DdeI	CTNAG	2 cut(s)	155, 399
DinI	GGCGCC	1 cut(s)	39
DpnI	GATC	4 cut(s)	29, 204, 443, 498
DpnII	GATC	4 cut(s)	27, 202, 441, 496
EaeI	YGGCCR	1 cut(s)	331
Eco130I	CCWWGG	1 cut(s)	334
Eco47I	GGWCC	1 cut(s)	513
EcoO109I	RGGNCCY	1 cut(s)	513
EcoRII	CCWGG	1 cut(s)	567
EcoT14I	CCWWGG	1 cut(s)	334
EgeI	GGCGCC	1 cut(s)	39
EheI	GGCGCC	1 cut(s)	39
ErhI	CCWWGG	1 cut(s)	334
Esp3I	CGTCTC	1 cut(s)	56
FaeI	CATG	2 cut(s)	324, 338
FaqI	GGGAC	1 cut(s)	499
FatI	CATG	2 cut(s)	320, 334
Fnu4HI	GCNGC	2 cut(s)	10, 340
FokI	GGATG	2 cut(s)	320, 432
Fsp4HI	GCNGC	2 cut(s)	10, 340
FspBI	CTAG	4 cut(s)	200, 206, 258, 411
GlaI	GCGC	1 cut(s)	39
GluI	GCNGC	2 cut(s)	10, 340
HaeII	RGCGCY	1 cut(s)	41
HaeIII	GGCC	3 cut(s)	96, 333, 369
HhaI	GCGC	1 cut(s)	40
Hin1I	GRCGYC	1 cut(s)	38
Hin1II	CATG	2 cut(s)	324, 338
Hin6I	GCGC	1 cut(s)	38
HinP1I	GCGC	1 cut(s)	38
HinfI	GANTC	4 cut(s)	138, 395, 416, 560
Hpy188I	TCNGA	8 cut(s)	32, 61, 137, 394, 400, 421, 441, 496
Hpy188III	TCNNGA	4 cut(s)	103, 200, 206, 215
Hpy99I	CGWCG	1 cut(s)	61
HpyAV	CCTTC	1 cut(s)	459
HpyCH4III	ACNGT	5 cut(s)	272, 304, 364, 463, 577
HpyCH4V	TGCA	2 cut(s)	149, 167
HpyF10VI	GCNNNNNNNGC	3 cut(s)	117, 330, 339
HpyF3I	CTNAG	2 cut(s)	155, 399
Hsp92I	GRCGYC	1 cut(s)	38
Hsp92II	CATG	2 cut(s)	324, 338
HspAI	GCGC	1 cut(s)	38
KasI	GGCGCC	1 cut(s)	37
Kzo9I	GATC	4 cut(s)	27, 202, 441, 496
MaeI	CTAG	4 cut(s)	200, 206, 258, 411
MaeIII	GTNAC	1 cut(s)	298
MalI	GATC	4 cut(s)	29, 204, 443, 498
MboI	GATC	4 cut(s)	27, 202, 441, 496
MflI	RGATCY	2 cut(s)	202, 496
MhlI	GDGCHC	1 cut(s)	434
MluCI	AATT	1 cut(s)	587
Mly113I	GGCGCC	1 cut(s)	38
MlyI	GAGTC	2 cut(s)	132, 554
MmeI	TCCRAC	2 cut(s)	39, 482
MnlI	CCTC	8 cut(s)	75, 107, 110, 118, 214, 235, 336, 472
MspR9I	CCNGG	1 cut(s)	569
Mva1269I	GAATGC	1 cut(s)	403
MvaI	CCWGG	1 cut(s)	569
MwoI	GCNNNNNNNGC	3 cut(s)	117, 330, 339
NarI	GGCGCC	1 cut(s)	38
NcoI	CCATGG	1 cut(s)	334
NdeII	GATC	4 cut(s)	27, 202, 441, 496
NlaIII	CATG	2 cut(s)	324, 338
NlaIV	GGNNCC	3 cut(s)	39, 433, 515
NmeAIII	GCCGAG	1 cut(s)	309
NmuCI	GTSAC	1 cut(s)	298
NspI	RCATGY	1 cut(s)	324
PctI	GAATGC	1 cut(s)	403
PfeI	GAWTC	2 cut(s)	395, 416
PflFI	GACNNNGTC	1 cut(s)	473
PkrI	GCNGC	2 cut(s)	11, 341
PleI	GAGTC	2 cut(s)	132, 554
PluTI	GGCGCC	1 cut(s)	41
PpsI	GAGTC	2 cut(s)	132, 554
PpuMI	RGGWCCY	1 cut(s)	513
Psp5II	RGGWCCY	1 cut(s)	513
Psp6I	CCWGG	1 cut(s)	567
PspGI	CCWGG	1 cut(s)	567
PspN4I	GGNNCC	3 cut(s)	39, 433, 515
PspPI	GGNCC	1 cut(s)	513
PspPPI	RGGWCCY	1 cut(s)	513
PstNI	CAGNNNCTG	1 cut(s)	398
PsuI	RGATCY	2 cut(s)	202, 496
PsyI	GACNNNGTC	1 cut(s)	473
RsaI	GTAC	1 cut(s)	361
RsaNI	GTAC	1 cut(s)	360
SatI	GCNGC	2 cut(s)	10, 340
Sau3AI	GATC	4 cut(s)	27, 202, 441, 496
Sau96I	GGNCC	1 cut(s)	513
SchI	GAGTC	2 cut(s)	132, 554
ScrFI	CCNGG	1 cut(s)	569
SduI	GDGCHC	1 cut(s)	434
SetI	ASST	3 cut(s)	266, 488, 515
SfoI	GGCGCC	1 cut(s)	39
SinI	GGWCC	1 cut(s)	513
SmlI	CTYRAG	2 cut(s)	13, 101
SmoI	CTYRAG	2 cut(s)	13, 101
Sse9I	AATT	1 cut(s)	587
SsiI	CCGC	2 cut(s)	9, 339
SspDI	GGCGCC	1 cut(s)	37
SspMI	CTAG	4 cut(s)	200, 206, 258, 411
StyD4I	CCNGG	1 cut(s)	567
StyI	CCWWGG	1 cut(s)	334
TaaI	ACNGT	5 cut(s)	272, 304, 364, 463, 577
TaqI	TCGA	2 cut(s)	312, 477
TasI	AATT	1 cut(s)	587
TauI	GCSGC	2 cut(s)	12, 342
TfiI	GAWTC	2 cut(s)	395, 416
TscAI	CASTG	5 cut(s)	156, 284, 301, 307, 535
TseFI	GTSAC	1 cut(s)	298
Tsp45I	GTSAC	1 cut(s)	298
TspDTI	ATGAA	1 cut(s)	512
TspGWI	ACGGA	1 cut(s)	201
TspRI	CASTG	5 cut(s)	156, 284, 301, 307, 535
Tth111I	GACNNNGTC	1 cut(s)	473
VpaK11BI	GGWCC	1 cut(s)	513
XapI	RAATTY	1 cut(s)	587
XbaI	TCTAGA	2 cut(s)	199, 205
XceI	RCATGY	1 cut(s)	324
XspI	CTAG	4 cut(s)	200, 206, 258, 411

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