Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4B

Orthogroup ID

OG0001616

Physical Location & Seq

Genomic Coordinates Reverse (-)

10172803 .. 10181350

Gene Structure 8548 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4BG056900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 819 bp

ATGATTGACGACGGTGCTCTCGCCTCAATCTACGATTTCCAAATCGATAAATTTCAGAGATTAGCTATACAAGCATGCTTGAGAAGTTCATCAGTAGTTGTGACTGCGCCGACGAGTAGCGGAAAGACTTTGATAGCAGAAGCTGCTGCTGTAGCAACCGTAGCCAAGGGAAGAAGATTGTTCTACACAACTTCGCTTAAGGCCTTATTGAATCAGAAGTTTTGCGAATTTCGTGAAACTTTCGGTGAAAATAATGTTGGTCTTCTCACGGGAGATTCGGCAGTGAACGAAGATGCTCAGGTTTTTATTATGACCATAGAGATTTTGCGCAACATGTTGTATCAGAGTTTTAAGGAGTTAGCTGGAAGTCGGCCTCTCTCAGAATTGAGAACTGCTGAAGAAGCTGCTGCTGCTGGTGCCACTTCAGAGGATGGTGTACAAGCAAACGGGGGACTTGATGATCCTGATGATGAACTTGAGGACAACATTCTGGAATGGAAACAGCCAGGCACTAGAACTCAGGAACTGCCTTTGCTCATGCAGTTCCGACTTTTTTACAAAGGCTATGCTATCAAAGGAACTTTTCTTGTCAATAAACTGAATTTGGTTCGATATGGAAAATCTCCTCCAATAGACCTCTCCGACAAAGGCTTCACCGAATCAGTGTCGGAGGATTTCAGTAACTTGAAGTCTCTCTCATGCCCGCTCAACCTCTCGTTTCAATCACTTTTCCGGCACAATTTCGAAATCGCTGGGAGATTTATAGGTGAAGGTGAGGTTCGATTTTTGCAAAAACCAGGCCCTGAGTTCCCCAGGTAA

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

272

Amino Acids

30.07

Weight (kDa)

5.01

Isoelectric Point (pI)

45.06

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DEAD	PF00270	17 - 115	1.2e-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)

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)	329
AccB1I	GGYRCC	1 cut(s)	416
AccBSI	CCGCTC	1 cut(s)	706
AciI	CCGC	2 cut(s)	120, 704
AclWI	GGATC	1 cut(s)	455
AcsI	RAATTY	3 cut(s)	50, 227, 601
AcuI	CTGAAG	2 cut(s)	408, 417
AfaI	GTAC	1 cut(s)	438
AflII	CTTAAG	1 cut(s)	197
AflIII	ACRYGT	1 cut(s)	333
AgsI	TTSAA	3 cut(s)	211, 688, 722
AjnI	CCWGG	3 cut(s)	505, 796, 812
AjuI	GAANNNNNNNTTGG	2 cut(s)	240, 272
AluBI	AGCT	4 cut(s)	65, 143, 362, 404
AluI	AGCT	4 cut(s)	65, 143, 362, 404
Alw21I	GWGCWC	1 cut(s)	19
Alw26I	GTCTC	1 cut(s)	696
AlwI	GGATC	1 cut(s)	455
AlwNI	CAGNNNCTG	3 cut(s)	143, 526, 803
AoxI	GGCC	3 cut(s)	201, 371, 799
ApeKI	GCWGC	5 cut(s)	143, 146, 404, 407, 410
ApoI	RAATTY	3 cut(s)	50, 227, 601
AspLEI	GCGC	2 cut(s)	109, 330
AspS9I	GGNCC	1 cut(s)	800
AsuHPI	GGTGA	4 cut(s)	257, 646, 779, 785
AsuII	TTCGAA	1 cut(s)	744
BanI	GGYRCC	1 cut(s)	416
BbsI	GAAGAC	1 cut(s)	254
Bbv12I	GWGCWC	1 cut(s)	19
BbvI	GCAGC	5 cut(s)	130, 133, 391, 394, 397
BccI	CCATC	1 cut(s)	425
BciT130I	CCWGG	3 cut(s)	507, 798, 814
BcoDI	GTCTC	1 cut(s)	696
BfaI	CTAG	1 cut(s)	513
BfmI	CTRYAG	1 cut(s)	150
BfrI	CTTAAG	1 cut(s)	197
BisI	GCNGC	5 cut(s)	144, 147, 405, 408, 411
BlsI	GCNGC	5 cut(s)	145, 148, 406, 409, 412
Bme1390I	CCNGG	3 cut(s)	507, 798, 814
BmgT120I	GGNCC	1 cut(s)	800
BmiI	GGNNCC	1 cut(s)	418
BmrFI	CCNGG	3 cut(s)	507, 798, 814
BmsI	GCATC	1 cut(s)	283
BpiI	GAAGAC	1 cut(s)	254
Bpu10I	CCTNAGC	1 cut(s)	297
Bpu14I	TTCGAA	1 cut(s)	744
BpuEI	CTTGAG	2 cut(s)	100, 497
Bsa29I	ATCGAT	1 cut(s)	45
BsaJI	CCNNGG	2 cut(s)	165, 812
BseBI	CCWGG	3 cut(s)	507, 798, 814
BseCI	ATCGAT	1 cut(s)	45
BseDI	CCNNGG	2 cut(s)	165, 812
BseGI	GGATG	1 cut(s)	436
BseMII	CTCAG	4 cut(s)	311, 393, 533, 795
BseRI	GAGGAG	1 cut(s)	615
BseXI	GCAGC	5 cut(s)	130, 133, 391, 394, 397
BseYI	CCCAGC	1 cut(s)	752
BshFI	GGCC	3 cut(s)	203, 373, 801
BshNI	GGYRCC	1 cut(s)	416
BshVI	ATCGAT	1 cut(s)	45
BsiHKAI	GWGCWC	1 cut(s)	19
BsiSI	CCGG	1 cut(s)	733
BslFI	GGGAC	1 cut(s)	465
BsmAI	GTCTC	1 cut(s)	696
BsmFI	GGGAC	1 cut(s)	465
BsnI	GGCC	3 cut(s)	203, 373, 801
Bsp119I	TTCGAA	1 cut(s)	744
Bsp1286I	GDGCHC	1 cut(s)	19
Bsp1407I	TGTACA	1 cut(s)	436
Bsp143I	GATC	1 cut(s)	460
BspACI	CCGC	2 cut(s)	120, 704
BspANI	GGCC	3 cut(s)	203, 373, 801
BspCNI	CTCAG	4 cut(s)	310, 392, 532, 796
BspDI	ATCGAT	1 cut(s)	45
BspLI	GGNNCC	1 cut(s)	418
BspPI	GGATC	1 cut(s)	455
BspT104I	TTCGAA	1 cut(s)	744
BspT107I	GGYRCC	1 cut(s)	416
BspTI	CTTAAG	1 cut(s)	197
BsrBI	CCGCTC	1 cut(s)	706
BsrGI	TGTACA	1 cut(s)	436
BssECI	CCNNGG	2 cut(s)	165, 812
BssMI	GATC	1 cut(s)	460
BssT1I	CCWWGG	1 cut(s)	165
Bst2UI	CCWGG	3 cut(s)	507, 798, 814
Bst4CI	ACNGT	2 cut(s)	14, 160
BstAFI	CTTAAG	1 cut(s)	197
BstAPI	GCANNNNNTGC	1 cut(s)	143
BstAUI	TGTACA	1 cut(s)	436
BstBI	TTCGAA	1 cut(s)	744
BstC8I	GCNNGC	2 cut(s)	76, 704
BstDEI	CTNAG	4 cut(s)	297, 379, 519, 804
BstF5I	GGATG	1 cut(s)	436
BstHHI	GCGC	2 cut(s)	109, 330
BstKTI	GATC	1 cut(s)	463
BstMAI	GTCTC	1 cut(s)	696
BstMBI	GATC	1 cut(s)	460
BstMWI	GCNNNNNNNGC	7 cut(s)	71, 143, 152, 161, 401, 410, 416
BstNI	CCWGG	3 cut(s)	507, 798, 814
BstNSI	RCATGY	2 cut(s)	78, 337
BstSCI	CCNGG	3 cut(s)	505, 796, 812
BstSFI	CTRYAG	1 cut(s)	150
BstV1I	GCAGC	5 cut(s)	130, 133, 391, 394, 397
BstV2I	GAAGAC	1 cut(s)	254
Bsu15I	ATCGAT	1 cut(s)	45
BsuRI	GGCC	3 cut(s)	203, 373, 801
BsuTUI	ATCGAT	1 cut(s)	45
BtsCI	GGATG	1 cut(s)	436
BtsI	GCAGTG	1 cut(s)	288
BtsIMutI	CAGTG	2 cut(s)	288, 669
Cac8I	GCNNGC	2 cut(s)	76, 704
CaiI	CAGNNNCTG	3 cut(s)	143, 526, 803
CfoI	GCGC	2 cut(s)	109, 330
Cfr13I	GGNCC	1 cut(s)	800
ClaI	ATCGAT	1 cut(s)	45
Csp6I	GTAC	1 cut(s)	437
CviAII	CATG	4 cut(s)	75, 334, 538, 699
CviQI	GTAC	1 cut(s)	437
DdeI	CTNAG	4 cut(s)	297, 379, 519, 804
DpnI	GATC	1 cut(s)	462
DpnII	GATC	1 cut(s)	460
Eco130I	CCWWGG	1 cut(s)	165
Eco147I	AGGCCT	1 cut(s)	203
Eco57I	CTGAAG	2 cut(s)	408, 417
EcoO109I	RGGNCCY	1 cut(s)	800
EcoRII	CCWGG	3 cut(s)	505, 796, 812
EcoT14I	CCWWGG	1 cut(s)	165
ErhI	CCWWGG	1 cut(s)	165
FaeI	CATG	4 cut(s)	78, 337, 541, 702
FaqI	GGGAC	1 cut(s)	465
FatI	CATG	4 cut(s)	74, 333, 537, 698
FauI	CCCGC	1 cut(s)	711
Fnu4HI	GCNGC	5 cut(s)	144, 147, 405, 408, 411
FokI	GGATG	1 cut(s)	443
Fsp4HI	GCNGC	5 cut(s)	144, 147, 405, 408, 411
FspBI	CTAG	1 cut(s)	513
FspI	TGCGCA	1 cut(s)	329
GlaI	GCGC	2 cut(s)	108, 329
GluI	GCNGC	5 cut(s)	144, 147, 405, 408, 411
GsaI	CCCAGC	1 cut(s)	756
HaeIII	GGCC	3 cut(s)	203, 373, 801
HapII	CCGG	1 cut(s)	733
HhaI	GCGC	2 cut(s)	109, 330
Hin1II	CATG	4 cut(s)	78, 337, 541, 702
Hin6I	GCGC	2 cut(s)	107, 328
HinP1I	GCGC	2 cut(s)	107, 328
HinfI	GANTC	3 cut(s)	211, 275, 659
HpaII	CCGG	1 cut(s)	733
HphI	GGTGA	4 cut(s)	257, 646, 779, 785
Hpy166II	GTNNAC	2 cut(s)	286, 437
Hpy188I	TCNGA	8 cut(s)	57, 216, 345, 382, 427, 548, 643, 670
Hpy188III	TCNNGA	4 cut(s)	233, 464, 491, 521
Hpy8I	GTNNAC	2 cut(s)	286, 437
Hpy99I	CGWCG	2 cut(s)	14, 115
HpyAV	CCTTC	1 cut(s)	764
HpyCH4III	ACNGT	2 cut(s)	14, 160
HpyCH4V	TGCA	2 cut(s)	541, 790
HpyF10VI	GCNNNNNNNGC	7 cut(s)	71, 143, 152, 161, 401, 410, 416
HpyF3I	CTNAG	4 cut(s)	297, 379, 519, 804
Hsp92II	CATG	4 cut(s)	78, 337, 541, 702
HspAI	GCGC	2 cut(s)	107, 328
Kzo9I	GATC	1 cut(s)	460
Lsp1109I	GCAGC	5 cut(s)	130, 133, 391, 394, 397
LweI	GCATC	1 cut(s)	283
MaeI	CTAG	1 cut(s)	513
MaeIII	GTNAC	2 cut(s)	100, 680
MalI	GATC	1 cut(s)	462
MbiI	CCGCTC	1 cut(s)	706
MboI	GATC	1 cut(s)	460
MboII	GAAGA	5 cut(s)	183, 186, 254, 302, 410
MhlI	GDGCHC	1 cut(s)	19
MluCI	AATT	5 cut(s)	50, 227, 383, 601, 739
MmeI	TCCRAC	3 cut(s)	571, 648, 666
MnlI	CCTC	9 cut(s)	34, 384, 421, 472, 636, 647, 664, 722, 769
MseI	TTAA	2 cut(s)	198, 351
MspCI	CTTAAG	1 cut(s)	197
MspI	CCGG	1 cut(s)	733
MspR9I	CCNGG	3 cut(s)	507, 798, 814
MvaI	CCWGG	3 cut(s)	507, 798, 814
MwoI	GCNNNNNNNGC	7 cut(s)	71, 143, 152, 161, 401, 410, 416
NdeII	GATC	1 cut(s)	460
NlaIII	CATG	4 cut(s)	78, 337, 541, 702
NlaIV	GGNNCC	1 cut(s)	418
NmuCI	GTSAC	1 cut(s)	100
NsbI	TGCGCA	1 cut(s)	329
NspI	RCATGY	2 cut(s)	78, 337
NspV	TTCGAA	1 cut(s)	744
PaeI	GCATGC	1 cut(s)	78
PceI	AGGCCT	1 cut(s)	203
PciI	ACATGT	1 cut(s)	333
PfeI	GAWTC	3 cut(s)	211, 275, 659
PkrI	GCNGC	5 cut(s)	145, 148, 406, 409, 412
PscI	ACATGT	1 cut(s)	333
Psp6I	CCWGG	3 cut(s)	505, 796, 812
PspFI	CCCAGC	1 cut(s)	752
PspGI	CCWGG	3 cut(s)	505, 796, 812
PspN4I	GGNNCC	1 cut(s)	418
PspPI	GGNCC	1 cut(s)	800
PstNI	CAGNNNCTG	3 cut(s)	143, 526, 803
RsaI	GTAC	1 cut(s)	438
RsaNI	GTAC	1 cut(s)	437
SaqAI	TTAA	2 cut(s)	198, 351
SatI	GCNGC	5 cut(s)	144, 147, 405, 408, 411
Sau3AI	GATC	1 cut(s)	460
Sau96I	GGNCC	1 cut(s)	800
ScrFI	CCNGG	3 cut(s)	507, 798, 814
SduI	GDGCHC	1 cut(s)	19
SfaNI	GCATC	1 cut(s)	283
SfcI	CTRYAG	1 cut(s)	150
SfuI	TTCGAA	1 cut(s)	744
SmlI	CTYRAG	3 cut(s)	79, 197, 476
SmoI	CTYRAG	3 cut(s)	79, 197, 476
SphI	GCATGC	1 cut(s)	78
Sse9I	AATT	5 cut(s)	50, 227, 383, 601, 739
SseBI	AGGCCT	1 cut(s)	203
SsiI	CCGC	2 cut(s)	120, 704
SspMI	CTAG	1 cut(s)	513
StuI	AGGCCT	1 cut(s)	203
StyD4I	CCNGG	3 cut(s)	505, 796, 812
StyI	CCWWGG	1 cut(s)	165
TaaI	ACNGT	2 cut(s)	14, 160
TaqI	TCGA	4 cut(s)	45, 610, 744, 781
TasI	AATT	5 cut(s)	50, 227, 383, 601, 739
TatI	WGTACW	1 cut(s)	436
TfiI	GAWTC	3 cut(s)	211, 275, 659
Tru1I	TTAA	2 cut(s)	198, 351
Tru9I	TTAA	2 cut(s)	198, 351
TscAI	CASTG	2 cut(s)	288, 669
TseFI	GTSAC	1 cut(s)	100
TseI	GCWGC	5 cut(s)	143, 146, 404, 407, 410
Tsp45I	GTSAC	1 cut(s)	100
TspDTI	ATGAA	2 cut(s)	78, 486
TspRI	CASTG	2 cut(s)	288, 669
Vha464I	CTTAAG	1 cut(s)	197
XapI	RAATTY	3 cut(s)	50, 227, 601
XceI	RCATGY	2 cut(s)	78, 337
XspI	CTAG	1 cut(s)	513

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