Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4A

Orthogroup ID

OG0001616

Physical Location & Seq

Genomic Coordinates Reverse (-)

12201955 .. 12205982

Gene Structure 4028 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4AG058100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 417 bp

ATGATTGACGACGGTGCTCTCGCCTCAATCTACGATTTCCAAATCGATAAATTTCAGAGATTAGCTATACAAGCATGCTTGAGAAGTTCATCAGTAGTTGTGACTGCGCCGACGAGTAGCGGAAAGACTTTGATAGCAGAAGCTGCTGCTGTAGCAACCGTAGCCAAGGGAAGAAGATTGTTCTACACAACTTCGCTTAAGGCCTTATTGAATCAGAAGTTTTGCGAATTTCGTGAAACTTTCGGTGAAAATAATGTTGGTCTTCTCACGGGAGATTCGGCAGTGAACGAAGATGCTCAGGGACTTGATGATCCTGATGATGAACTTGAGGACAACATTCTGGAATGGAAACAGCCAGGCACTAGAACTCAGGAACTGATGCTATCCGCCACATTTGATCTCTGCCGGGCCTTATGA

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

138

Amino Acids

15.08

Weight (kDa)

4.45

Isoelectric Point (pI)

38.88

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DEAD	PF00270	17 - 101	6.2e-12	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)

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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)
AciI	CCGC	2 cut(s)	120, 387
AclWI	GGATC	1 cut(s)	305
AcsI	RAATTY	2 cut(s)	50, 227
AflII	CTTAAG	1 cut(s)	197
AgsI	TTSAA	1 cut(s)	211
AjnI	CCWGG	1 cut(s)	355
AjuI	GAANNNNNNNTTGG	2 cut(s)	240, 272
AluBI	AGCT	2 cut(s)	65, 143
AluI	AGCT	2 cut(s)	65, 143
Alw21I	GWGCWC	1 cut(s)	19
AlwI	GGATC	1 cut(s)	305
AlwNI	CAGNNNCTG	2 cut(s)	143, 376
AoxI	GGCC	2 cut(s)	201, 408
ApeKI	GCWGC	2 cut(s)	143, 146
ApoI	RAATTY	2 cut(s)	50, 227
AspLEI	GCGC	1 cut(s)	109
AspS9I	GGNCC	1 cut(s)	408
AsuC2I	CCSGG	1 cut(s)	407
AsuHPI	GGTGA	1 cut(s)	257
BbsI	GAAGAC	1 cut(s)	254
Bbv12I	GWGCWC	1 cut(s)	19
BbvI	GCAGC	2 cut(s)	130, 133
BciT130I	CCWGG	1 cut(s)	357
BcnI	CCSGG	1 cut(s)	407
BfaI	CTAG	1 cut(s)	363
BfmI	CTRYAG	1 cut(s)	150
BfrI	CTTAAG	1 cut(s)	197
BisI	GCNGC	2 cut(s)	144, 147
BlsI	GCNGC	2 cut(s)	145, 148
Bme1390I	CCNGG	2 cut(s)	357, 407
BmgT120I	GGNCC	1 cut(s)	408
BmrFI	CCNGG	2 cut(s)	357, 407
BmsI	GCATC	2 cut(s)	283, 369
BpiI	GAAGAC	1 cut(s)	254
Bpu10I	CCTNAGC	1 cut(s)	297
BpuEI	CTTGAG	2 cut(s)	100, 347
BpuMI	CCSGG	1 cut(s)	407
Bsa29I	ATCGAT	1 cut(s)	45
BsaJI	CCNNGG	1 cut(s)	165
BseBI	CCWGG	1 cut(s)	357
BseCI	ATCGAT	1 cut(s)	45
BseDI	CCNNGG	1 cut(s)	165
BseMII	CTCAG	2 cut(s)	311, 383
BseXI	GCAGC	2 cut(s)	130, 133
BshFI	GGCC	2 cut(s)	203, 410
BshVI	ATCGAT	1 cut(s)	45
BsiHKAI	GWGCWC	1 cut(s)	19
BsiSI	CCGG	1 cut(s)	406
BslFI	GGGAC	1 cut(s)	315
BsmFI	GGGAC	1 cut(s)	315
BsnI	GGCC	2 cut(s)	203, 410
Bsp1286I	GDGCHC	1 cut(s)	19
Bsp143I	GATC	2 cut(s)	310, 397
BspACI	CCGC	2 cut(s)	120, 387
BspANI	GGCC	2 cut(s)	203, 410
BspCNI	CTCAG	2 cut(s)	310, 382
BspDI	ATCGAT	1 cut(s)	45
BspPI	GGATC	1 cut(s)	305
BspTI	CTTAAG	1 cut(s)	197
BssECI	CCNNGG	1 cut(s)	165
BssMI	GATC	2 cut(s)	310, 397
BssT1I	CCWWGG	1 cut(s)	165
Bst2UI	CCWGG	1 cut(s)	357
Bst4CI	ACNGT	2 cut(s)	14, 160
BstAFI	CTTAAG	1 cut(s)	197
BstAPI	GCANNNNNTGC	1 cut(s)	143
BstC8I	GCNNGC	1 cut(s)	76
BstDEI	CTNAG	2 cut(s)	297, 369
BstHHI	GCGC	1 cut(s)	109
BstKTI	GATC	2 cut(s)	313, 400
BstMBI	GATC	2 cut(s)	310, 397
BstMWI	GCNNNNNNNGC	4 cut(s)	71, 143, 152, 161
BstNI	CCWGG	1 cut(s)	357
BstNSI	RCATGY	1 cut(s)	78
BstSCI	CCNGG	2 cut(s)	355, 405
BstSFI	CTRYAG	1 cut(s)	150
BstV1I	GCAGC	2 cut(s)	130, 133
BstV2I	GAAGAC	1 cut(s)	254
Bsu15I	ATCGAT	1 cut(s)	45
BsuRI	GGCC	2 cut(s)	203, 410
BsuTUI	ATCGAT	1 cut(s)	45
BtsI	GCAGTG	1 cut(s)	288
BtsIMutI	CAGTG	1 cut(s)	288
Cac8I	GCNNGC	1 cut(s)	76
CaiI	CAGNNNCTG	2 cut(s)	143, 376
CfoI	GCGC	1 cut(s)	109
Cfr13I	GGNCC	1 cut(s)	408
ClaI	ATCGAT	1 cut(s)	45
CviAII	CATG	1 cut(s)	75
CviJI	RGCY	6 cut(s)	65, 143, 164, 203, 355, 410
CviKI_1	RGCY	6 cut(s)	65, 143, 164, 203, 355, 410
DdeI	CTNAG	2 cut(s)	297, 369
DpnI	GATC	2 cut(s)	312, 399
DpnII	GATC	2 cut(s)	310, 397
EciI	GGCGGA	1 cut(s)	376
Eco130I	CCWWGG	1 cut(s)	165
Eco147I	AGGCCT	1 cut(s)	203
EcoRII	CCWGG	1 cut(s)	355
EcoT14I	CCWWGG	1 cut(s)	165
ErhI	CCWWGG	1 cut(s)	165
FaeI	CATG	1 cut(s)	78
FaiI	YATR	3 cut(s)	68, 76, 415
FaqI	GGGAC	1 cut(s)	315
FatI	CATG	1 cut(s)	74
Fnu4HI	GCNGC	2 cut(s)	144, 147
Fsp4HI	GCNGC	2 cut(s)	144, 147
FspBI	CTAG	1 cut(s)	363
GlaI	GCGC	1 cut(s)	108
GluI	GCNGC	2 cut(s)	144, 147
HaeIII	GGCC	2 cut(s)	203, 410
HapII	CCGG	1 cut(s)	406
HhaI	GCGC	1 cut(s)	109
Hin1II	CATG	1 cut(s)	78
Hin6I	GCGC	1 cut(s)	107
HinP1I	GCGC	1 cut(s)	107
HinfI	GANTC	2 cut(s)	211, 275
HpaII	CCGG	1 cut(s)	406
HphI	GGTGA	1 cut(s)	257
Hpy166II	GTNNAC	1 cut(s)	286
Hpy188I	TCNGA	2 cut(s)	57, 216
Hpy188III	TCNNGA	4 cut(s)	233, 314, 341, 371
Hpy8I	GTNNAC	1 cut(s)	286
Hpy99I	CGWCG	2 cut(s)	14, 115
HpyCH4III	ACNGT	2 cut(s)	14, 160
HpyF10VI	GCNNNNNNNGC	4 cut(s)	71, 143, 152, 161
HpyF3I	CTNAG	2 cut(s)	297, 369
Hsp92II	CATG	1 cut(s)	78
HspAI	GCGC	1 cut(s)	107
Kzo9I	GATC	2 cut(s)	310, 397
LpnPI	CCDG	6 cut(s)	284, 326, 327, 342, 356, 369
Lsp1109I	GCAGC	2 cut(s)	130, 133
LweI	GCATC	2 cut(s)	283, 369
MaeI	CTAG	1 cut(s)	363
MaeIII	GTNAC	1 cut(s)	100
MalI	GATC	2 cut(s)	312, 399
MboI	GATC	2 cut(s)	310, 397
MboII	GAAGA	4 cut(s)	183, 186, 254, 302
MhlI	GDGCHC	1 cut(s)	19
MluCI	AATT	2 cut(s)	50, 227
MnlI	CCTC	2 cut(s)	34, 322
MseI	TTAA	1 cut(s)	198
MspCI	CTTAAG	1 cut(s)	197
MspI	CCGG	1 cut(s)	406
MspR9I	CCNGG	2 cut(s)	357, 407
MvaI	CCWGG	1 cut(s)	357
MwoI	GCNNNNNNNGC	4 cut(s)	71, 143, 152, 161
NciI	CCSGG	1 cut(s)	407
NdeII	GATC	2 cut(s)	310, 397
NlaIII	CATG	1 cut(s)	78
NmuCI	GTSAC	1 cut(s)	100
NspI	RCATGY	1 cut(s)	78
PaeI	GCATGC	1 cut(s)	78
PceI	AGGCCT	1 cut(s)	203
PfeI	GAWTC	2 cut(s)	211, 275
PkrI	GCNGC	2 cut(s)	145, 148
Psp6I	CCWGG	1 cut(s)	355
PspGI	CCWGG	1 cut(s)	355
PspPI	GGNCC	1 cut(s)	408
PstNI	CAGNNNCTG	2 cut(s)	143, 376
SaqAI	TTAA	1 cut(s)	198
SatI	GCNGC	2 cut(s)	144, 147
Sau3AI	GATC	2 cut(s)	310, 397
Sau96I	GGNCC	1 cut(s)	408
ScrFI	CCNGG	2 cut(s)	357, 407
SduI	GDGCHC	1 cut(s)	19
SetI	ASST	2 cut(s)	67, 145
SfaNI	GCATC	2 cut(s)	283, 369
SfcI	CTRYAG	1 cut(s)	150
SmlI	CTYRAG	3 cut(s)	79, 197, 326
SmoI	CTYRAG	3 cut(s)	79, 197, 326
SphI	GCATGC	1 cut(s)	78
Sse9I	AATT	2 cut(s)	50, 227
SseBI	AGGCCT	1 cut(s)	203
SsiI	CCGC	2 cut(s)	120, 387
SspMI	CTAG	1 cut(s)	363
StuI	AGGCCT	1 cut(s)	203
StyD4I	CCNGG	2 cut(s)	355, 405
StyI	CCWWGG	1 cut(s)	165
TaaI	ACNGT	2 cut(s)	14, 160
TaqI	TCGA	1 cut(s)	45
TasI	AATT	2 cut(s)	50, 227
TfiI	GAWTC	2 cut(s)	211, 275
Tru1I	TTAA	1 cut(s)	198
Tru9I	TTAA	1 cut(s)	198
TscAI	CASTG	1 cut(s)	288
TseFI	GTSAC	1 cut(s)	100
TseI	GCWGC	2 cut(s)	143, 146
Tsp45I	GTSAC	1 cut(s)	100
TspDTI	ATGAA	2 cut(s)	78, 336
TspRI	CASTG	1 cut(s)	288
Vha464I	CTTAAG	1 cut(s)	197
XapI	RAATTY	2 cut(s)	50, 227
XceI	RCATGY	1 cut(s)	78
XspI	CTAG	1 cut(s)	363

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