Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000005

Orthogroup ID

OG0001616

Physical Location & Seq

Genomic Coordinates Forward (+)

62290449 .. 62296573

Gene Structure 6125 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_5G00382470.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 534 bp

ATGTCCCCAAAGCCTCATATGATAATGTACACGACGTTGCAGTACATGAAGGTGACTGGAAAACTTCTGGTTCCATCAAGCTCTGGAAATATACCTAGAGTCGGCGATTCGGGACGAGGAATTCAGGTGGCGAGAGTGGAGAAGCTCTGCGAAGATGTGAAGCGGTTCGGCGAGGAAATGATTGACGATGGCTCTCTCGCCTCTATCTACGATTTCCGAATCGATAAATTTCAGGACTCCGTTTGGGTACAAATTGGACTCCAATTGGCTCGAGCAGAGTTGCAATCAAAATTCTCTGTGGTTTTCCATAGTTCGGGCTCGACGGGGAAGCCGAAAGGTGTTTGTGGCACTGAACAAGGTCTTTGGAATCGGTTTCTGTGGATGCAAGAATTTTACGGAGGTGTAGTCTTGGCTTCTCGAGATGGGAAGATTGTGCGTGACAACACTCTCGATGCACGGTTGGATGTTGTATTCGTATTCTGTAAAAAACTTCCCGAGATCCGCATAAGGCTTTTCAATCAGGTTGTTGCATAA

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

177

Amino Acids

19.92

Weight (kDa)

9.19

Isoelectric Point (pI)

43.18

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
vATP-synt_E	PF01991	123 - 172	1e-08	ATP synthase (E/31 kDa) subunit

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

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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)	163, 502
AclWI	GGATC	1 cut(s)	493
AcsI	RAATTY	4 cut(s)	120, 227, 290, 389
AfaI	GTAC	3 cut(s)	29, 44, 249
AfiI	CCNNNNNNNGG	2 cut(s)	101, 313
AgsI	TTSAA	1 cut(s)	517
AluBI	AGCT	2 cut(s)	81, 145
AluI	AGCT	2 cut(s)	81, 145
AlwI	GGATC	1 cut(s)	493
Ama87I	CYCGRG	3 cut(s)	270, 417, 494
ApoI	RAATTY	4 cut(s)	120, 227, 290, 389
Asp700I	GAANNNNTTC	1 cut(s)	164
AsuHPI	GGTGA	1 cut(s)	64
AvaI	CYCGRG	3 cut(s)	270, 417, 494
BanII	GRGCYC	1 cut(s)	320
BccI	CCATC	3 cut(s)	82, 182, 416
BfaI	CTAG	1 cut(s)	96
BmeT110I	CYCGRG	3 cut(s)	270, 417, 494
BmiI	GGNNCC	1 cut(s)	72
BmsI	GCATC	2 cut(s)	372, 442
Bsa29I	ATCGAT	1 cut(s)	222
BsaXI	ACNNNNNCTCC	2 cut(s)	390, 420
Bsc4I	CCNNNNNNNGG	2 cut(s)	101, 313
Bse1I	ACTGG	1 cut(s)	61
BseCI	ATCGAT	1 cut(s)	222
BseGI	GGATG	2 cut(s)	387, 469
BseLI	CCNNNNNNNGG	2 cut(s)	101, 313
BseNI	ACTGG	1 cut(s)	61
BshVI	ATCGAT	1 cut(s)	222
BsiHKCI	CYCGRG	3 cut(s)	270, 417, 494
BslFI	GGGAC	1 cut(s)	126
BslI	CCNNNNNNNGG	2 cut(s)	101, 313
BsmFI	GGGAC	1 cut(s)	126
BsoBI	CYCGRG	3 cut(s)	270, 417, 494
Bsp1286I	GDGCHC	1 cut(s)	320
Bsp1407I	TGTACA	1 cut(s)	27
Bsp143I	GATC	1 cut(s)	498
BspACI	CCGC	2 cut(s)	163, 502
BspDI	ATCGAT	1 cut(s)	222
BspLI	GGNNCC	1 cut(s)	72
BspPI	GGATC	1 cut(s)	493
BsrGI	TGTACA	1 cut(s)	27
BsrI	ACTGG	1 cut(s)	61
BssMI	GATC	1 cut(s)	498
Bst4CI	ACNGT	1 cut(s)	459
BstAUI	TGTACA	1 cut(s)	27
BstF5I	GGATG	2 cut(s)	387, 469
BstKTI	GATC	1 cut(s)	501
BstMBI	GATC	1 cut(s)	498
BstX2I	RGATCY	1 cut(s)	498
BstYI	RGATCY	1 cut(s)	498
Bsu15I	ATCGAT	1 cut(s)	222
BsuTUI	ATCGAT	1 cut(s)	222
BtsCI	GGATG	2 cut(s)	387, 469
BtsIMutI	CAGTG	1 cut(s)	348
ClaI	ATCGAT	1 cut(s)	222
Csp6I	GTAC	3 cut(s)	28, 43, 248
CviAII	CATG	1 cut(s)	46
CviJI	RGCY	9 cut(s)	13, 81, 145, 192, 269, 318, 331, 413, 511
CviKI_1	RGCY	9 cut(s)	13, 81, 145, 192, 269, 318, 331, 413, 511
CviQI	GTAC	3 cut(s)	28, 43, 248
DpnI	GATC	1 cut(s)	500
DpnII	GATC	1 cut(s)	498
Eco24I	GRGCYC	1 cut(s)	320
Eco88I	CYCGRG	3 cut(s)	270, 417, 494
EcoRI	GAATTC	1 cut(s)	120
EcoT38I	GRGCYC	1 cut(s)	320
FaeI	CATG	1 cut(s)	49
FaiI	YATR	7 cut(s)	18, 20, 47, 92, 309, 506, 532
FaqI	GGGAC	1 cut(s)	126
FatI	CATG	1 cut(s)	45
FauNDI	CATATG	1 cut(s)	18
FokI	GGATG	2 cut(s)	394, 476
FriOI	GRGCYC	1 cut(s)	320
FspBI	CTAG	1 cut(s)	96
Hin1II	CATG	1 cut(s)	49
HinfI	GANTC	6 cut(s)	99, 107, 219, 236, 258, 367
HphI	GGTGA	1 cut(s)	64
Hpy166II	GTNNAC	1 cut(s)	30
Hpy188I	TCNGA	1 cut(s)	218
Hpy188III	TCNNGA	7 cut(s)	84, 111, 233, 417, 419, 449, 494
Hpy8I	GTNNAC	1 cut(s)	30
Hpy99I	CGWCG	2 cut(s)	37, 325
HpyAV	CCTTC	1 cut(s)	43
HpyCH4III	ACNGT	1 cut(s)	459
HpyCH4IV	ACGT	1 cut(s)	35
HpyCH4V	TGCA	5 cut(s)	40, 283, 385, 455, 530
HpySE526I	ACGT	1 cut(s)	35
Hsp92II	CATG	1 cut(s)	49
Kzo9I	GATC	1 cut(s)	498
LpnPI	CCDG	6 cut(s)	42, 53, 69, 110, 218, 506
LweI	GCATC	2 cut(s)	372, 442
MaeI	CTAG	1 cut(s)	96
MaeII	ACGT	1 cut(s)	35
MaeIII	GTNAC	2 cut(s)	52, 437
MalI	GATC	1 cut(s)	500
MboI	GATC	1 cut(s)	498
MboII	GAAGA	2 cut(s)	164, 439
MfeI	CAATTG	1 cut(s)	263
MflI	RGATCY	1 cut(s)	498
MhlI	GDGCHC	1 cut(s)	320
MluCI	AATT	6 cut(s)	120, 227, 252, 263, 290, 389
MlyI	GAGTC	3 cut(s)	108, 230, 252
MmeI	TCCRAC	1 cut(s)	441
MnlI	CCTC	5 cut(s)	24, 110, 166, 211, 392
MroXI	GAANNNNTTC	1 cut(s)	164
MslI	CAYNNNNRTG	1 cut(s)	50
MunI	CAATTG	1 cut(s)	263
NdeI	CATATG	1 cut(s)	18
NdeII	GATC	1 cut(s)	498
NlaIII	CATG	1 cut(s)	49
NlaIV	GGNNCC	1 cut(s)	72
NmuCI	GTSAC	2 cut(s)	52, 437
PaeR7I	CTCGAG	2 cut(s)	270, 417
PcsI	WCGNNNNNNNCGW	1 cut(s)	329
PdmI	GAANNNNTTC	1 cut(s)	164
PfeI	GAWTC	3 cut(s)	107, 219, 367
PleI	GAGTC	3 cut(s)	107, 230, 252
PpsI	GAGTC	3 cut(s)	107, 230, 252
PspN4I	GGNNCC	1 cut(s)	72
PspXI	VCTCGAGB	1 cut(s)	270
PsuI	RGATCY	1 cut(s)	498
RsaI	GTAC	3 cut(s)	29, 44, 249
RsaNI	GTAC	3 cut(s)	28, 43, 248
RseI	CAYNNNNRTG	1 cut(s)	50
Sau3AI	GATC	1 cut(s)	498
SchI	GAGTC	3 cut(s)	108, 230, 252
SduI	GDGCHC	1 cut(s)	320
SfaNI	GCATC	2 cut(s)	372, 442
Sfr274I	CTCGAG	2 cut(s)	270, 417
SlaI	CTCGAG	2 cut(s)	270, 417
SmiMI	CAYNNNNRTG	1 cut(s)	50
SmlI	CTYRAG	2 cut(s)	270, 417
SmoI	CTYRAG	2 cut(s)	270, 417
Sse9I	AATT	6 cut(s)	120, 227, 252, 263, 290, 389
SsiI	CCGC	2 cut(s)	163, 502
SspMI	CTAG	1 cut(s)	96
TaaI	ACNGT	1 cut(s)	459
TaiI	ACGT	1 cut(s)	38
TaqI	TCGA	5 cut(s)	222, 271, 320, 418, 450
TasI	AATT	6 cut(s)	120, 227, 252, 263, 290, 389
TatI	WGTACW	2 cut(s)	27, 42
TfiI	GAWTC	3 cut(s)	107, 219, 367
TscAI	CASTG	1 cut(s)	355
TseFI	GTSAC	2 cut(s)	52, 437
Tsp45I	GTSAC	2 cut(s)	52, 437
TspDTI	ATGAA	1 cut(s)	62
TspGWI	ACGGA	2 cut(s)	229, 411
TspRI	CASTG	1 cut(s)	355
XapI	RAATTY	4 cut(s)	120, 227, 290, 389
XhoI	CTCGAG	2 cut(s)	270, 417
XmnI	GAANNNNTTC	1 cut(s)	164
XspI	CTAG	1 cut(s)	96

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