Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2D

Orthogroup ID

OG0001616

Physical Location & Seq

Genomic Coordinates Reverse (-)

55006220 .. 55006947

Gene Structure 728 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2DG381600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 465 bp

ATGGAGGACTCCATGGCCAGTGCAGAGCCGCCGGCGATTCGCAACGAGGAGTTCCGGTGGAAGAGAGTGGAGAAGCTCTGCGAAGATGTGAAACAGTTCGGCGAGGAAATGATTGACGACGGTGCTCTCGCCTCAATCTACGATTTCCAAATCGATAAATTTCAGAGATTAGCTATACAAGCATTCTTGAGAAGTTCATCAGTAGTTGTGACTGCGCCGACGAGTAGCGGAAAGACTTTGATAGCAGAAGCTGCTGCTGTAGCAACCGTAGCCAAGGGAAGAAGATTGTTCTACACAACTCCGCTTAAGGCCTTATTGAATCAGAAGTTTCGCGAATTTCGTGAAACTTTCGGTGAAAATAATGTTGGTCTTCTCACGGGAGATTCGGCAGTAAACGAAGATGCTCAGGTTTTTATTATGACCATAGAGATTTTGCGCAACATGTTGTATCAGAGGTATATTTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0000373 GO:0000375 GO:0000377 GO:0003006 GO:0003674 GO:0003676 GO:0003723 GO:0003724 GO:0003824 GO:0004004 GO:0004386 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005730 GO:0005737 GO:0006139 GO:0006396 GO:0006397 GO:0006725 GO:0006807 GO:0006810 GO:0007275 GO:0008026 GO:0008150 GO:0008152 GO:0008186 GO:0008380 GO:0009507 GO:0009532 GO:0009536 GO:0009570 GO:0009790 GO:0009791 GO:0009793 GO:0009892 GO:0009987 GO:0010154 GO:0010467 GO:0010468 GO:0010494 GO:0010496 GO:0010497 GO:0010501 GO:0010605 GO:0010608 GO:0010629 GO:0016070 GO:0016071 GO:0016441 GO:0016458 GO:0016462 GO:0016787 GO:0016817 GO:0016818 GO:0016887 GO:0017111 GO:0019222 GO:0022414 GO:0031974 GO:0031981 GO:0032501 GO:0032502 GO:0032991 GO:0034641 GO:0035770 GO:0036464 GO:0040029 GO:0042623 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044434 GO:0044435 GO:0044444 GO:0044446 GO:0044464 GO:0046483 GO:0048316 GO:0048519 GO:0048608 GO:0048731 GO:0048856 GO:0050789 GO:0051179 GO:0051234 GO:0060255 GO:0061458 GO:0065007 GO:0070013 GO:0070035 GO:0071704 GO:0090304 GO:0097159 GO:0140098 GO:1901360 GO:1901363 GO:1990904

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

DEAD DSHCT Helicase_C

Protein Analysis

154

Amino Acids

17.42

Weight (kDa)

5.14

Isoelectric Point (pI)

48.52

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
ResIII	PF04851	52 - 148	6.5e-07	Type III restriction enzyme, res subunit
DEAD	PF00270	53 - 149	4.3e-15	DEAD/DEAH box helicase

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: OG0001616)

Species	Orthologous Gene IDs
rosa_chinensis	RchiOBHm_Chr2g0102891
rosa_laevigata	RLG00000003325 RLG00000010663 RLG00000014743 RLG00000021608 RLG00000028731
rosa_multiflora	Rmu_co8212272.1_g000001 Rmu_co8257291.1_g000001 Rmu_sc0000375.1_g000004 Rmu_sc0001619.1_g000004 Rmu_sc0002160.1_g000017 Rmu_sc0002960.1_g000003 Rmu_sc0004031.1_g000010 Rmu_sc0011657.1_g000008 Rmu_sc0014046.1_g000004
rosa_roxburghii	Rroxscaffold_1G00024170 Rroxscaffold_2G00149140 Rroxscaffold_5G00382470
rosa_rugosa	Rorug02G0226400 Rorug02G0226500 Rorug04G0046600 Rorug05G0408800 Rorug05G0408900 Rorug06G0089500 Rorug06G0089600 Rorug06G0089700.1 Rorug06G0089800
rosa_samantha	Rh1BG120900 Rh2AG219500 Rh2AG390100 Rh2BG229500 Rh2CG165000 Rh2DG225900 Rh2DG381600 Rh3BG369300 Rh3CG331600 Rh3DG328600 Rh4AG016000 Rh4AG058100 Rh4BG056900 Rh4CG112600 Rh4CG219300 Rh4CG219400 Rh4DG021700 Rh5DG477800 Rh5DG495600 Rh7AG221500 Rh7AG324600 Rh7CG341400
rosa_wichuraiana	Rw1G015160

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc16I	TGCGCA	1 cut(s)	437
AccII	CGCG	1 cut(s)	333
AciI	CCGC	3 cut(s)	29, 228, 302
AcoI	YGGCCR	1 cut(s)	15
AcsI	RAATTY	2 cut(s)	158, 335
AflII	CTTAAG	1 cut(s)	305
AflIII	ACRYGT	1 cut(s)	441
AgsI	TTSAA	1 cut(s)	319
AjuI	GAANNNNNNNTTGG	2 cut(s)	348, 380
AluBI	AGCT	3 cut(s)	76, 173, 251
AluI	AGCT	3 cut(s)	76, 173, 251
Alw21I	GWGCWC	1 cut(s)	127
AlwNI	CAGNNNCTG	1 cut(s)	251
AoxI	GGCC	2 cut(s)	15, 309
ApeKI	GCWGC	2 cut(s)	251, 254
ApoI	RAATTY	2 cut(s)	158, 335
Asp700I	GAANNNNTTC	1 cut(s)	95
AspLEI	GCGC	2 cut(s)	217, 438
AsuHPI	GGTGA	1 cut(s)	365
BalI	TGGCCA	1 cut(s)	17
BbsI	GAAGAC	1 cut(s)	362
Bbv12I	GWGCWC	1 cut(s)	127
BbvI	GCAGC	2 cut(s)	238, 241
BfmI	CTRYAG	1 cut(s)	258
BfrI	CTTAAG	1 cut(s)	305
BisI	GCNGC	3 cut(s)	29, 252, 255
BlsI	GCNGC	3 cut(s)	30, 253, 256
BmsI	GCATC	1 cut(s)	391
BpiI	GAAGAC	1 cut(s)	362
Bpu10I	CCTNAGC	1 cut(s)	405
BpuEI	CTTGAG	1 cut(s)	208
Bsa29I	ATCGAT	1 cut(s)	153
BsaJI	CCNNGG	2 cut(s)	12, 273
BsaWI	WCCGGW	1 cut(s)	54
BsaXI	ACNNNNNCTCC	2 cut(s)	41, 71
Bse118I	RCCGGY	1 cut(s)	31
Bse1I	ACTGG	1 cut(s)	18
BseCI	ATCGAT	1 cut(s)	153
BseDI	CCNNGG	2 cut(s)	12, 273
BseMII	CTCAG	1 cut(s)	419
BseNI	ACTGG	1 cut(s)	18
BseRI	GAGGAG	1 cut(s)	62
BseXI	GCAGC	2 cut(s)	238, 241
BsgI	GTGCAG	1 cut(s)	42
Bsh1236I	CGCG	1 cut(s)	333
BshFI	GGCC	2 cut(s)	17, 311
BshVI	ATCGAT	1 cut(s)	153
BsiHKAI	GWGCWC	1 cut(s)	127
BsiSI	CCGG	2 cut(s)	32, 55
BsmI	GAATGC	1 cut(s)	182
BsnI	GGCC	2 cut(s)	17, 311
Bsp1286I	GDGCHC	1 cut(s)	127
Bsp19I	CCATGG	1 cut(s)	12
Bsp68I	TCGCGA	1 cut(s)	333
BspACI	CCGC	3 cut(s)	29, 228, 302
BspANI	GGCC	2 cut(s)	17, 311
BspCNI	CTCAG	1 cut(s)	418
BspDI	ATCGAT	1 cut(s)	153
BspFNI	CGCG	1 cut(s)	333
BspTI	CTTAAG	1 cut(s)	305
BsrFI	RCCGGY	1 cut(s)	31
BsrI	ACTGG	1 cut(s)	18
BssAI	RCCGGY	1 cut(s)	31
BssECI	CCNNGG	2 cut(s)	12, 273
BssT1I	CCWWGG	2 cut(s)	12, 273
Bst4CI	ACNGT	3 cut(s)	96, 122, 268
Bst6I	CTCTTC	1 cut(s)	56
BstAFI	CTTAAG	1 cut(s)	305
BstAPI	GCANNNNNTGC	1 cut(s)	251
BstC8I	GCNNGC	1 cut(s)	33
BstDEI	CTNAG	1 cut(s)	405
BstDSI	CCRYGG	1 cut(s)	12
BstFNI	CGCG	1 cut(s)	333
BstHHI	GCGC	2 cut(s)	217, 438
BstMWI	GCNNNNNNNGC	4 cut(s)	179, 251, 260, 269
BstNSI	RCATGY	1 cut(s)	445
BstSFI	CTRYAG	1 cut(s)	258
BstUI	CGCG	1 cut(s)	333
BstV1I	GCAGC	2 cut(s)	238, 241
BstV2I	GAAGAC	1 cut(s)	362
Bsu15I	ATCGAT	1 cut(s)	153
BsuRI	GGCC	2 cut(s)	17, 311
BsuTUI	ATCGAT	1 cut(s)	153
BtgI	CCRYGG	1 cut(s)	12
BtsIMutI	CAGTG	1 cut(s)	25
BtuMI	TCGCGA	1 cut(s)	333
Cac8I	GCNNGC	1 cut(s)	33
CaiI	CAGNNNCTG	1 cut(s)	251
CfoI	GCGC	2 cut(s)	217, 438
Cfr10I	RCCGGY	1 cut(s)	31
ClaI	ATCGAT	1 cut(s)	153
CviAII	CATG	2 cut(s)	13, 442
CviJI	RGCY	7 cut(s)	17, 28, 76, 173, 251, 272, 311
CviKI_1	RGCY	7 cut(s)	17, 28, 76, 173, 251, 272, 311
DdeI	CTNAG	1 cut(s)	405
EaeI	YGGCCR	1 cut(s)	15
Eam1104I	CTCTTC	1 cut(s)	56
EarI	CTCTTC	1 cut(s)	56
Eco130I	CCWWGG	2 cut(s)	12, 273
Eco147I	AGGCCT	1 cut(s)	311
EcoT14I	CCWWGG	2 cut(s)	12, 273
ErhI	CCWWGG	2 cut(s)	12, 273
FaeI	CATG	2 cut(s)	16, 445
FaiI	YATR	6 cut(s)	14, 176, 419, 425, 443, 459
FatI	CATG	2 cut(s)	12, 441
Fnu4HI	GCNGC	3 cut(s)	29, 252, 255
Fsp4HI	GCNGC	3 cut(s)	29, 252, 255
FspI	TGCGCA	1 cut(s)	437
GlaI	GCGC	2 cut(s)	216, 437
GluI	GCNGC	3 cut(s)	29, 252, 255
HaeIII	GGCC	2 cut(s)	17, 311
HapII	CCGG	2 cut(s)	32, 55
HhaI	GCGC	2 cut(s)	217, 438
Hin1II	CATG	2 cut(s)	16, 445
Hin6I	GCGC	2 cut(s)	215, 436
HinP1I	GCGC	2 cut(s)	215, 436
HinfI	GANTC	4 cut(s)	8, 37, 319, 383
HpaII	CCGG	2 cut(s)	32, 55
HphI	GGTGA	1 cut(s)	365
Hpy166II	GTNNAC	1 cut(s)	394
Hpy188I	TCNGA	3 cut(s)	165, 324, 453
Hpy188III	TCNNGA	3 cut(s)	187, 332, 341
Hpy8I	GTNNAC	1 cut(s)	394
Hpy99I	CGWCG	2 cut(s)	122, 223
HpyCH4III	ACNGT	3 cut(s)	96, 122, 268
HpyCH4V	TGCA	1 cut(s)	23
HpyF10VI	GCNNNNNNNGC	4 cut(s)	179, 251, 260, 269
HpyF3I	CTNAG	1 cut(s)	405
Hsp92II	CATG	2 cut(s)	16, 445
HspAI	GCGC	2 cut(s)	215, 436
KroI	GCCGGC	1 cut(s)	31
KroNI	GCCGGC	1 cut(s)	33
LpnPI	CCDG	4 cut(s)	31, 45, 68, 392
Lsp1109I	GCAGC	2 cut(s)	238, 241
LweI	GCATC	1 cut(s)	391
MaeIII	GTNAC	1 cut(s)	208
MboII	GAAGA	6 cut(s)	73, 95, 291, 294, 362, 410
MhlI	GDGCHC	1 cut(s)	127
MlsI	TGGCCA	1 cut(s)	17
MluCI	AATT	2 cut(s)	158, 335
MluNI	TGGCCA	1 cut(s)	17
MlyI	GAGTC	1 cut(s)	2
MnlI	CCTC	4 cut(s)	40, 97, 142, 447
Mox20I	TGGCCA	1 cut(s)	17
MreI	CGCCGGCG	1 cut(s)	31
MroNI	GCCGGC	1 cut(s)	31
MroXI	GAANNNNTTC	1 cut(s)	95
MscI	TGGCCA	1 cut(s)	17
MseI	TTAA	1 cut(s)	306
Msp20I	TGGCCA	1 cut(s)	17
MspCI	CTTAAG	1 cut(s)	305
MspI	CCGG	2 cut(s)	32, 55
Mva1269I	GAATGC	1 cut(s)	182
MvnI	CGCG	1 cut(s)	333
MwoI	GCNNNNNNNGC	4 cut(s)	179, 251, 260, 269
NaeI	GCCGGC	1 cut(s)	33
NcoI	CCATGG	1 cut(s)	12
NgoMIV	GCCGGC	1 cut(s)	31
NlaIII	CATG	2 cut(s)	16, 445
NmuCI	GTSAC	1 cut(s)	208
NruI	TCGCGA	1 cut(s)	333
NsbI	TGCGCA	1 cut(s)	437
NspI	RCATGY	1 cut(s)	445
PceI	AGGCCT	1 cut(s)	311
PciI	ACATGT	1 cut(s)	441
PcsI	WCGNNNNNNNCGW	1 cut(s)	337
PctI	GAATGC	1 cut(s)	182
PdiI	GCCGGC	1 cut(s)	33
PdmI	GAANNNNTTC	1 cut(s)	95
PfeI	GAWTC	3 cut(s)	37, 319, 383
PkrI	GCNGC	3 cut(s)	30, 253, 256
PleI	GAGTC	1 cut(s)	2
PpsI	GAGTC	1 cut(s)	2
PscI	ACATGT	1 cut(s)	441
PstNI	CAGNNNCTG	1 cut(s)	251
RruI	TCGCGA	1 cut(s)	333
SaqAI	TTAA	1 cut(s)	306
SatI	GCNGC	3 cut(s)	29, 252, 255
SchI	GAGTC	1 cut(s)	2
SduI	GDGCHC	1 cut(s)	127
SetI	ASST	5 cut(s)	78, 175, 253, 411, 458
SfaNI	GCATC	1 cut(s)	391
SfcI	CTRYAG	1 cut(s)	258
SgrAI	CRCCGGYG	1 cut(s)	31
SmlI	CTYRAG	2 cut(s)	187, 305
SmoI	CTYRAG	2 cut(s)	187, 305
Sse9I	AATT	2 cut(s)	158, 335
SseBI	AGGCCT	1 cut(s)	311
SsiI	CCGC	3 cut(s)	29, 228, 302
StuI	AGGCCT	1 cut(s)	311
StyI	CCWWGG	2 cut(s)	12, 273
TaaI	ACNGT	3 cut(s)	96, 122, 268
TaqI	TCGA	1 cut(s)	153
TasI	AATT	2 cut(s)	158, 335
TauI	GCSGC	1 cut(s)	31
TfiI	GAWTC	3 cut(s)	37, 319, 383
Tru1I	TTAA	1 cut(s)	306
Tru9I	TTAA	1 cut(s)	306
TscAI	CASTG	1 cut(s)	25
TseFI	GTSAC	1 cut(s)	208
TseI	GCWGC	2 cut(s)	251, 254
Tsp45I	GTSAC	1 cut(s)	208
TspDTI	ATGAA	1 cut(s)	186
TspRI	CASTG	1 cut(s)	25
Vha464I	CTTAAG	1 cut(s)	305
XapI	RAATTY	2 cut(s)	158, 335
XceI	RCATGY	1 cut(s)	445
XmnI	GAANNNNTTC	1 cut(s)	95

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