Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4A

Orthogroup ID

OG0006954

Physical Location & Seq

Genomic Coordinates Reverse (-)

23657016 .. 23660162

Gene Structure 3147 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4AG109100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 717 bp

ATGTCAAGTAGCACAACATACAATGGCCATGGCTTAAACGAGTTTGTGCCGCAGAGGACGTCGGCTTATGTCAGTCAACAGGACTGGTTTGCGGTGGAGATGACTGTAAGGGAGACTCTTGACTTTGCAGGACGGTGTCAAGGTGTTGGATTCAAATATGGTAAGAATTACCTATACCCAACACGCATAACATCTGGAGCAGCAGCTTTGGTGTTTTCAGCCTTCTACATCATGTACCTGTTTCTCCCTCTGCAATGGATTGGCATGAATGCTATGCTTGTCTACGTTATGGCAGCTGAAGGTTGTGCTCTGCGTTTTAGGGGTCTTTACCTTGCAACTGCTGACACAGTGATCATATATGATAGTGATTGGAATCCTCATGCAGATCTACAAGCTATGGCAAGAGCTCATCGACTTGGGCAAACTAACAAGGAAGAGCTAGATGATATCATTCGATACGGATCAAAGGAGTTATTTGCTGATGAAAATGATGAAGCGGGAAAATCCCGTCAAATTCATTATGATGATGCTGCGATAGAGAGATTACTTGATCGTGAACAAGCTGGGGATGATGACACTCCGTTGGAGGAAGGAGATGAAGATGGATTTTTAAAGTCCTTTAAGGGAATAATTGTTATTGATAACATAGAGTTGAGTTCACCAAATGTTACTTGTACCGAGTCTACTCTCTGTCAAAATTCTGATTTTTTTGAGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001101 GO:0003674 GO:0003676 GO:0003677 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006325 GO:0006338 GO:0006355 GO:0006996 GO:0007154 GO:0007165 GO:0007275 GO:0008150 GO:0008283 GO:0009719 GO:0009725 GO:0009733 GO:0009735 GO:0009736 GO:0009739 GO:0009755 GO:0009787 GO:0009788 GO:0009889 GO:0009890 GO:0009892 GO:0009966 GO:0009968 GO:0009987 GO:0010033 GO:0010468 GO:0010556 GO:0010558 GO:0010605 GO:0010629 GO:0010646 GO:0010648 GO:0016043 GO:0019219 GO:0019222 GO:0022622 GO:0023051 GO:0023052 GO:0023057 GO:0031323 GO:0031324 GO:0031326 GO:0031327 GO:0032501 GO:0032502 GO:0032870 GO:0033993 GO:0042221 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044464 GO:0045892 GO:0045934 GO:0048364 GO:0048519 GO:0048523 GO:0048580 GO:0048583 GO:0048585 GO:0048731 GO:0048856 GO:0050789 GO:0050793 GO:0050794 GO:0050896 GO:0051171 GO:0051172 GO:0051239 GO:0051252 GO:0051253 GO:0051276 GO:0051716 GO:0060255 GO:0065007 GO:0070887 GO:0071310 GO:0071368 GO:0071495 GO:0071840 GO:0080090 GO:0097159 GO:0099402 GO:1901363 GO:1901419 GO:1901420 GO:1901700 GO:1902679 GO:1903506 GO:1903507 GO:1905957 GO:1905958 GO:2000023 GO:2000026 GO:2000069 GO:2000112 GO:2000113 GO:2000280 GO:2001141

KEGG Pathways

Metabolic & Signaling

ko05165 ko05203 map05165 map05203

Pfam Domains

Protein Families

CHDCT2 Chromo DUF1086 DUF1087 Helicase_C PHD SNF2_N

Protein Analysis

238

Amino Acids

26.79

Weight (kDa)

4.49

Isoelectric Point (pI)

37.19

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Helicase_C	PF00271	107 - 140	1.3e-06	Helicase conserved C-terminal domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0006954)

Species	Orthologous Gene IDs
malus_domestica	MD09G1111500.v1.1 MD13G1012800.v1.1 MD14G1086800.v1.1
pyrus_communis	pycom16g23680
rosa_chinensis	RchiOBHm_Chr1g0327391 RchiOBHm_Chr2g0095571 RchiOBHm_Chr2g0161621 RchiOBHm_Chr2g0171851 RchiOBHm_Chr3g0494951 RchiOBHm_Chr4g0407971
rosa_multiflora	Rmu_co8049090.1_g000001 Rmu_sc0003610.1_g000015
rosa_roxburghii	Rroxscaffold_1G00001900 Rroxscaffold_1G00039140 Rroxscaffold_6G00388120
rosa_rugosa	Rorug02G0632300
rosa_samantha	Rh3AG069600 Rh3AG317900 Rh3BG072000 Rh3DG252300 Rh4AG109100 Rh4AG110900 Rh4CG284900 Rh6AG114600 Rh7AG464100
rosa_wichuraiana	Rw5G002470

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AatII	GACGTC	1 cut(s)	62
AccI	GTMKAC	2 cut(s)	282, 683
AciI	CCGC	3 cut(s)	50, 92, 497
AclWI	GGATC	1 cut(s)	469
AcoI	YGGCCR	1 cut(s)	25
AcsI	RAATTY	2 cut(s)	513, 697
AcuI	CTGAAG	1 cut(s)	318
AcyI	GRCGYC	1 cut(s)	59
AfaI	GTAC	2 cut(s)	236, 676
AgsI	TTSAA	1 cut(s)	154
AluBI	AGCT	6 cut(s)	206, 296, 395, 407, 439, 563
AluI	AGCT	6 cut(s)	206, 296, 395, 407, 439, 563
Alw21I	GWGCWC	2 cut(s)	310, 409
Alw26I	GTCTC	1 cut(s)	107
AlwI	GGATC	1 cut(s)	469
AoxI	GGCC	1 cut(s)	25
ApeKI	GCWGC	4 cut(s)	200, 203, 293, 530
ApoI	RAATTY	2 cut(s)	513, 697
AsuHPI	GGTGA	1 cut(s)	651
BalI	TGGCCA	1 cut(s)	27
BanII	GRGCYC	1 cut(s)	409
Bbv12I	GWGCWC	2 cut(s)	310, 409
BbvI	GCAGC	4 cut(s)	212, 215, 305, 517
BccI	CCATC	1 cut(s)	596
BclI	TGATCA	1 cut(s)	351
BcoDI	GTCTC	1 cut(s)	107
BfaI	CTAG	1 cut(s)	440
BglII	AGATCT	1 cut(s)	385
BisI	GCNGC	5 cut(s)	50, 201, 204, 294, 531
BlsI	GCNGC	5 cut(s)	51, 202, 205, 295, 532
BmsI	GCATC	1 cut(s)	517
BpmI	CTGGAG	1 cut(s)	216
BsaBI	GATNNNNATC	2 cut(s)	372, 460
BsaHI	GRCGYC	1 cut(s)	59
BsaJI	CCNNGG	1 cut(s)	28
Bse1I	ACTGG	1 cut(s)	89
Bse3DI	GCAATG	1 cut(s)	260
Bse8I	GATNNNNATC	2 cut(s)	372, 460
BseDI	CCNNGG	1 cut(s)	28
BseGI	GGATG	1 cut(s)	574
BseJI	GATNNNNATC	2 cut(s)	372, 460
BseMI	GCAATG	1 cut(s)	260
BseNI	ACTGG	1 cut(s)	89
BseXI	GCAGC	4 cut(s)	212, 215, 305, 517
BseYI	CCCAGC	1 cut(s)	563
BshFI	GGCC	1 cut(s)	27
BsiHKAI	GWGCWC	2 cut(s)	310, 409
BsmAI	GTCTC	1 cut(s)	107
BsmI	GAATGC	1 cut(s)	274
BsnI	GGCC	1 cut(s)	27
Bsp1286I	GDGCHC	2 cut(s)	310, 409
Bsp143I	GATC	4 cut(s)	351, 385, 461, 550
Bsp19I	CCATGG	1 cut(s)	28
BspACI	CCGC	3 cut(s)	50, 92, 497
BspANI	GGCC	1 cut(s)	27
BspPI	GGATC	1 cut(s)	469
BspQI	GCTCTTC	1 cut(s)	429
BsrDI	GCAATG	1 cut(s)	260
BsrI	ACTGG	1 cut(s)	89
BssECI	CCNNGG	1 cut(s)	28
BssMI	GATC	4 cut(s)	351, 385, 461, 550
BssNI	GRCGYC	1 cut(s)	59
BssT1I	CCWWGG	1 cut(s)	28
Bst4CI	ACNGT	3 cut(s)	106, 135, 349
Bst6I	CTCTTC	1 cut(s)	429
BstACI	GRCGYC	1 cut(s)	59
BstDSI	CCRYGG	1 cut(s)	28
BstF5I	GGATG	1 cut(s)	574
BstKTI	GATC	4 cut(s)	354, 388, 464, 553
BstMAI	GTCTC	1 cut(s)	107
BstMBI	GATC	4 cut(s)	351, 385, 461, 550
BstV1I	GCAGC	4 cut(s)	212, 215, 305, 517
BstX2I	RGATCY	1 cut(s)	385
BstYI	RGATCY	1 cut(s)	385
BsuRI	GGCC	1 cut(s)	27
BtgI	CCRYGG	1 cut(s)	28
BtsCI	GGATG	1 cut(s)	574
BtsIMutI	CAGTG	1 cut(s)	354
Csp6I	GTAC	2 cut(s)	235, 675
CviAII	CATG	4 cut(s)	29, 232, 265, 380
CviQI	GTAC	2 cut(s)	235, 675
DpnI	GATC	4 cut(s)	353, 387, 463, 552
DpnII	GATC	4 cut(s)	351, 385, 461, 550
DraI	TTTAAA	1 cut(s)	612
EaeI	YGGCCR	1 cut(s)	25
Eam1104I	CTCTTC	1 cut(s)	429
EarI	CTCTTC	1 cut(s)	429
Ecl136II	GAGCTC	1 cut(s)	407
Eco130I	CCWWGG	1 cut(s)	28
Eco24I	GRGCYC	1 cut(s)	409
Eco32I	GATATC	1 cut(s)	448
Eco53kI	GAGCTC	1 cut(s)	407
Eco57I	CTGAAG	1 cut(s)	318
EcoICRI	GAGCTC	1 cut(s)	407
EcoRV	GATATC	1 cut(s)	448
EcoT14I	CCWWGG	1 cut(s)	28
EcoT38I	GRGCYC	1 cut(s)	409
ErhI	CCWWGG	1 cut(s)	28
FaeI	CATG	4 cut(s)	32, 235, 268, 383
FatI	CATG	4 cut(s)	28, 231, 264, 379
FauI	CCCGC	1 cut(s)	490
FbaI	TGATCA	1 cut(s)	351
FblI	GTMKAC	2 cut(s)	282, 683
Fnu4HI	GCNGC	5 cut(s)	50, 201, 204, 294, 531
FokI	GGATG	1 cut(s)	581
FriOI	GRGCYC	1 cut(s)	409
Fsp4HI	GCNGC	5 cut(s)	50, 201, 204, 294, 531
FspBI	CTAG	1 cut(s)	440
GluI	GCNGC	5 cut(s)	50, 201, 204, 294, 531
GsaI	CCCAGC	1 cut(s)	567
GsuI	CTGGAG	1 cut(s)	216
HaeIII	GGCC	1 cut(s)	27
Hin1I	GRCGYC	1 cut(s)	59
Hin1II	CATG	4 cut(s)	32, 235, 268, 383
HincII	GTYRAC	1 cut(s)	77
HindII	GTYRAC	1 cut(s)	77
HinfI	GANTC	4 cut(s)	115, 150, 373, 680
HphI	GGTGA	1 cut(s)	651
Hpy166II	GTNNAC	5 cut(s)	77, 283, 557, 659, 684
Hpy188I	TCNGA	1 cut(s)	703
Hpy188III	TCNNGA	3 cut(s)	119, 195, 554
Hpy8I	GTNNAC	5 cut(s)	77, 283, 557, 659, 684
Hpy99I	CGWCG	1 cut(s)	64
HpyAV	CCTTC	3 cut(s)	232, 293, 584
HpyCH4III	ACNGT	3 cut(s)	106, 135, 349
HpyCH4IV	ACGT	2 cut(s)	59, 285
HpyCH4V	TGCA	4 cut(s)	128, 253, 335, 383
HpySE526I	ACGT	2 cut(s)	59, 285
Hsp92I	GRCGYC	1 cut(s)	59
Hsp92II	CATG	4 cut(s)	32, 235, 268, 383
Ksp22I	TGATCA	1 cut(s)	351
Kzo9I	GATC	4 cut(s)	351, 385, 461, 550
LguI	GCTCTTC	1 cut(s)	429
LmnI	GCTCC	1 cut(s)	197
LpnPI	CCDG	6 cut(s)	65, 70, 114, 180, 251, 549
Lsp1109I	GCAGC	4 cut(s)	212, 215, 305, 517
LweI	GCATC	1 cut(s)	517
MaeI	CTAG	1 cut(s)	440
MaeII	ACGT	2 cut(s)	59, 285
MaeIII	GTNAC	1 cut(s)	667
MalI	GATC	4 cut(s)	353, 387, 463, 552
MboI	GATC	4 cut(s)	351, 385, 461, 550
MboII	GAAGA	2 cut(s)	446, 611
MflI	RGATCY	1 cut(s)	385
MhlI	GDGCHC	2 cut(s)	310, 409
MlsI	TGGCCA	1 cut(s)	27
MluCI	AATT	4 cut(s)	166, 513, 630, 697
MluNI	TGGCCA	1 cut(s)	27
MlyI	GAGTC	2 cut(s)	109, 689
MmeI	TCCRAC	2 cut(s)	127, 564
MnlI	CCTC	4 cut(s)	48, 258, 387, 580
Mox20I	TGGCCA	1 cut(s)	27
MscI	TGGCCA	1 cut(s)	27
MseI	TTAA	3 cut(s)	35, 611, 621
MslI	CAYNNNNRTG	1 cut(s)	522
Msp20I	TGGCCA	1 cut(s)	27
MspA1I	CMGCKG	1 cut(s)	296
Mva1269I	GAATGC	1 cut(s)	274
NcoI	CCATGG	1 cut(s)	28
NdeII	GATC	4 cut(s)	351, 385, 461, 550
NlaIII	CATG	4 cut(s)	32, 235, 268, 383
PciSI	GCTCTTC	1 cut(s)	429
PctI	GAATGC	1 cut(s)	274
PfeI	GAWTC	2 cut(s)	150, 373
PflFI	GACNNNGTC	1 cut(s)	135
PkrI	GCNGC	5 cut(s)	51, 202, 205, 295, 532
PleI	GAGTC	2 cut(s)	109, 688
PpsI	GAGTC	2 cut(s)	109, 688
Psp124BI	GAGCTC	1 cut(s)	409
PspFI	CCCAGC	1 cut(s)	563
PsuI	RGATCY	1 cut(s)	385
PsyI	GACNNNGTC	1 cut(s)	135
PvuII	CAGCTG	1 cut(s)	296
RsaI	GTAC	2 cut(s)	236, 676
RsaNI	GTAC	2 cut(s)	235, 675
RseI	CAYNNNNRTG	1 cut(s)	522
SacI	GAGCTC	1 cut(s)	409
SapI	GCTCTTC	1 cut(s)	429
SaqAI	TTAA	3 cut(s)	35, 611, 621
SatI	GCNGC	5 cut(s)	50, 201, 204, 294, 531
Sau3AI	GATC	4 cut(s)	351, 385, 461, 550
SchI	GAGTC	2 cut(s)	109, 689
SduI	GDGCHC	2 cut(s)	310, 409
SfaNI	GCATC	1 cut(s)	517
SmiMI	CAYNNNNRTG	1 cut(s)	522
Sse9I	AATT	4 cut(s)	166, 513, 630, 697
SsiI	CCGC	3 cut(s)	50, 92, 497
SspMI	CTAG	1 cut(s)	440
SstI	GAGCTC	1 cut(s)	409
StyI	CCWWGG	1 cut(s)	28
TaaI	ACNGT	3 cut(s)	106, 135, 349
TaiI	ACGT	2 cut(s)	62, 288
TaqI	TCGA	2 cut(s)	412, 454
TasI	AATT	4 cut(s)	166, 513, 630, 697
TauI	GCSGC	1 cut(s)	52
TfiI	GAWTC	2 cut(s)	150, 373
Tru1I	TTAA	3 cut(s)	35, 611, 621
Tru9I	TTAA	3 cut(s)	35, 611, 621
TscAI	CASTG	1 cut(s)	354
TseI	GCWGC	4 cut(s)	200, 203, 293, 530
TspDTI	ATGAA	5 cut(s)	281, 498, 506, 507, 612
TspGWI	ACGGA	2 cut(s)	474, 570
TspRI	CASTG	1 cut(s)	354
Tth111I	GACNNNGTC	1 cut(s)	135
XapI	RAATTY	2 cut(s)	513, 697
XmiI	GTMKAC	2 cut(s)	282, 683
XspI	CTAG	1 cut(s)	440
ZraI	GACGTC	1 cut(s)	60

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