Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000004

Orthogroup ID

OG0008427

Physical Location & Seq

Genomic Coordinates Forward (+)

15663795 .. 15664458

Gene Structure 664 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug04G0099700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 537 bp

ATGTCGGGGGCAGGAGGATGGAATGAAGCCTTTATCCGAGAACACTTTGTGTCCGGGGATGCGGAGGCAATTCTTTCCATTCCACTTCCGGGAAGGCAACAATCGGATAGGTGGATATGGCATTTCACAGCAAAGGGGGAGTACACAGTTTCTAGTGGCTATAATTTGGCTATAGATATGGAGATGAGAGAGGAAACAGTTGGCGAAGGATCTGATATGAAGGTGATGGAAAAGATGTGGCAAAGGCTGTGGAAACTAAAGGTTCCAGAGAGAGTTAAGATTTTCATGTGGCGGGCTATGAAGGATATTCTCCCATGCAAAGCTACCCTAAATAGACGTCACATTATGGTGGATGCATCTTGTCCACGTTGTGGATGCCAAGCTGGGTACTTGTACAAGAGGAGCTTGATCTGTTTGCTTTTATTATGTGGAGAATTTGGCATGATAGAAATAAATGGGTCTTTGAGAATAAAAGATTTGATGCGCTCTATTCGTACAAACTGGCAAAGAGTAGTCATGATGAGTCTAGAGCAGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0005215 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005635 GO:0005737 GO:0005829 GO:0006606 GO:0006810 GO:0006886 GO:0006913 GO:0007154 GO:0007165 GO:0008104 GO:0008150 GO:0008565 GO:0009892 GO:0009987 GO:0010468 GO:0010605 GO:0010608 GO:0010629 GO:0012505 GO:0015031 GO:0015833 GO:0016043 GO:0016441 GO:0016458 GO:0017038 GO:0019222 GO:0022607 GO:0022613 GO:0022618 GO:0023052 GO:0031047 GO:0031967 GO:0031975 GO:0033036 GO:0033365 GO:0034504 GO:0034613 GO:0034622 GO:0035194 GO:0035195 GO:0035280 GO:0040029 GO:0042886 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043933 GO:0044085 GO:0044422 GO:0044424 GO:0044428 GO:0044444 GO:0044446 GO:0044464 GO:0045184 GO:0046907 GO:0048519 GO:0050789 GO:0050794 GO:0050896 GO:0051169 GO:0051170 GO:0051179 GO:0051234 GO:0051641 GO:0051649 GO:0051716 GO:0060255 GO:0065003 GO:0065007 GO:0070727 GO:0070922 GO:0071702 GO:0071705 GO:0071826 GO:0071840 GO:0072594

KEGG Pathways

Metabolic & Signaling

ko04013 map04013

Pfam Domains

Protein Families

Cse1 IBN_N

Protein Analysis

178

Amino Acids

20.61

Weight (kDa)

8.95

Isoelectric Point (pI)

47.12

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-RVT	PF13966	48 - 127	9.2e-11	zinc-binding in reverse transcriptase

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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Orthologous Genes (Group: OG0008427)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G31660 AT3G59020 AT3G59020
fragaria_vesca	FvH4_4g12200
malus_domestica	MD00G1128300.v1.1 MD04G1028800.v1.1
prunus_persica	Prupe.1G180500_v2.0.a1 Prupe.1G180500_v2.0.a1 Prupe.1G180500_v2.0.a1
pyrus_communis	pycom04g02510 pycom04g02520 pycom13g29470
rosa_chinensis	RchiOBHm_Chr4g0409961
rosa_laevigata	RLG00000008510
rosa_multiflora	Rmu_sc0000365.1_g000108 Rmu_sc0000987.1_g000001
rosa_roxburghii	Rroxscaffold_5G00354450
rosa_rugosa	Rorug04G0099700
rosa_samantha	Rh4AG158700 Rh4BG158100 Rh4CG169500 Rh4DG153600
rosa_wichuraiana	Rw4G013100

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AatII	GACGTC	1 cut(s)	340
AccB7I	CCANNNNNTGG	1 cut(s)	371
AciI	CCGC	2 cut(s)	62, 292
AclWI	GGATC	1 cut(s)	217
AcsI	RAATTY	1 cut(s)	434
AcyI	GRCGYC	1 cut(s)	337
AdeI	CACNNNGTG	2 cut(s)	49, 371
AfaI	GTAC	4 cut(s)	143, 389, 395, 496
AfiI	CCNNNNNNNGG	2 cut(s)	89, 371
AluBI	AGCT	3 cut(s)	323, 383, 405
AluI	AGCT	3 cut(s)	323, 383, 405
AlwI	GGATC	1 cut(s)	217
ApoI	RAATTY	1 cut(s)	434
AspLEI	GCGC	1 cut(s)	486
AsuC2I	CCSGG	2 cut(s)	55, 90
AsuHPI	GGTGA	1 cut(s)	235
BccI	CCATC	2 cut(s)	12, 220
BcnI	CCSGG	2 cut(s)	55, 90
BfaI	CTAG	2 cut(s)	153, 527
BfmI	CTRYAG	1 cut(s)	171
Bme1390I	CCNGG	2 cut(s)	55, 90
BmiI	GGNNCC	1 cut(s)	264
BmrFI	CCNGG	2 cut(s)	55, 90
BmsI	GCATC	5 cut(s)	49, 343, 365, 365, 471
BpuMI	CCSGG	2 cut(s)	55, 90
BsaHI	GRCGYC	1 cut(s)	337
BsaJI	CCNNGG	1 cut(s)	54
Bsc4I	CCNNNNNNNGG	2 cut(s)	89, 371
Bse1I	ACTGG	1 cut(s)	506
BseDI	CCNNGG	1 cut(s)	54
BseGI	GGATG	4 cut(s)	23, 64, 358, 380
BseLI	CCNNNNNNNGG	2 cut(s)	89, 371
BseNI	ACTGG	1 cut(s)	506
BseRI	GAGGAG	1 cut(s)	415
BseYI	CCCAGC	1 cut(s)	383
BsiSI	CCGG	2 cut(s)	54, 89
BslI	CCNNNNNNNGG	2 cut(s)	89, 371
Bsp1407I	TGTACA	1 cut(s)	393
Bsp143I	GATC	2 cut(s)	209, 408
BspACI	CCGC	2 cut(s)	62, 292
BspHI	TCATGA	1 cut(s)	516
BspLI	GGNNCC	1 cut(s)	264
BspPI	GGATC	1 cut(s)	217
BsrGI	TGTACA	1 cut(s)	393
BsrI	ACTGG	1 cut(s)	506
BssECI	CCNNGG	1 cut(s)	54
BssMI	GATC	2 cut(s)	209, 408
BssNI	GRCGYC	1 cut(s)	337
Bst4CI	ACNGT	2 cut(s)	148, 199
BstACI	GRCGYC	1 cut(s)	337
BstAUI	TGTACA	1 cut(s)	393
BstC8I	GCNNGC	1 cut(s)	294
BstF5I	GGATG	4 cut(s)	23, 64, 358, 380
BstHHI	GCGC	1 cut(s)	486
BstKTI	GATC	2 cut(s)	212, 411
BstMBI	GATC	2 cut(s)	209, 408
BstSCI	CCNGG	2 cut(s)	53, 88
BstSFI	CTRYAG	1 cut(s)	171
BstX2I	RGATCY	1 cut(s)	209
BstYI	RGATCY	1 cut(s)	209
BtsCI	GGATG	4 cut(s)	23, 64, 358, 380
Cac8I	GCNNGC	1 cut(s)	294
CciI	TCATGA	1 cut(s)	516
CfoI	GCGC	1 cut(s)	486
Csp6I	GTAC	4 cut(s)	142, 388, 394, 495
CspCI	CAANNNNNGTGG	2 cut(s)	230, 265
CviAII	CATG	4 cut(s)	286, 315, 442, 517
CviJI	RGCY	8 cut(s)	29, 159, 170, 247, 296, 323, 383, 405
CviKI_1	RGCY	8 cut(s)	29, 159, 170, 247, 296, 323, 383, 405
CviQI	GTAC	4 cut(s)	142, 388, 394, 495
DpnI	GATC	2 cut(s)	211, 410
DpnII	GATC	2 cut(s)	209, 408
DraIII	CACNNNGTG	2 cut(s)	49, 371
EcoT22I	ATGCAT	1 cut(s)	358
FaeI	CATG	4 cut(s)	289, 318, 445, 520
FalI	AAGNNNNNCTT	2 cut(s)	389, 421
FatI	CATG	4 cut(s)	285, 314, 441, 516
FauI	CCCGC	1 cut(s)	285
FokI	GGATG	4 cut(s)	30, 71, 365, 387
FspBI	CTAG	2 cut(s)	153, 527
GlaI	GCGC	1 cut(s)	485
GsaI	CCCAGC	1 cut(s)	387
HapII	CCGG	2 cut(s)	54, 89
HhaI	GCGC	1 cut(s)	486
Hin1I	GRCGYC	1 cut(s)	337
Hin1II	CATG	4 cut(s)	289, 318, 445, 520
Hin6I	GCGC	1 cut(s)	484
HinP1I	GCGC	1 cut(s)	484
HinfI	GANTC	1 cut(s)	523
HpaII	CCGG	2 cut(s)	54, 89
HphI	GGTGA	1 cut(s)	235
Hpy166II	GTNNAC	2 cut(s)	144, 365
Hpy188I	TCNGA	3 cut(s)	38, 106, 214
Hpy188III	TCNNGA	3 cut(s)	266, 517, 527
Hpy8I	GTNNAC	2 cut(s)	144, 365
HpyAV	CCTTC	4 cut(s)	87, 200, 214, 295
HpyCH4III	ACNGT	2 cut(s)	148, 199
HpyCH4IV	ACGT	2 cut(s)	337, 367
HpyCH4V	TGCA	2 cut(s)	318, 356
HpySE526I	ACGT	2 cut(s)	337, 367
Hsp92I	GRCGYC	1 cut(s)	337
Hsp92II	CATG	4 cut(s)	289, 318, 445, 520
HspAI	GCGC	1 cut(s)	484
Kzo9I	GATC	2 cut(s)	209, 408
LmnI	GCTCC	1 cut(s)	402
LpnPI	CCDG	5 cut(s)	67, 102, 279, 369, 487
LweI	GCATC	5 cut(s)	49, 343, 365, 365, 471
MaeI	CTAG	2 cut(s)	153, 527
MaeII	ACGT	2 cut(s)	337, 367
MaeIII	GTNAC	1 cut(s)	338
MalI	GATC	2 cut(s)	211, 410
MboI	GATC	2 cut(s)	209, 408
MflI	RGATCY	1 cut(s)	209
MluCI	AATT	3 cut(s)	69, 163, 434
MlyI	GAGTC	1 cut(s)	532
MnlI	CCTC	4 cut(s)	8, 58, 184, 393
Mph1103I	ATGCAT	1 cut(s)	358
MseI	TTAA	1 cut(s)	276
MslI	CAYNNNNRTG	1 cut(s)	347
MspI	CCGG	2 cut(s)	54, 89
MspR9I	CCNGG	2 cut(s)	55, 90
NciI	CCSGG	2 cut(s)	55, 90
NdeII	GATC	2 cut(s)	209, 408
NlaIII	CATG	4 cut(s)	289, 318, 445, 520
NlaIV	GGNNCC	1 cut(s)	264
NmuCI	GTSAC	1 cut(s)	338
NsiI	ATGCAT	1 cut(s)	358
PagI	TCATGA	1 cut(s)	516
PflMI	CCANNNNNTGG	1 cut(s)	371
PfoI	TCCNGGA	1 cut(s)	88
PleI	GAGTC	1 cut(s)	531
PpsI	GAGTC	1 cut(s)	531
PspFI	CCCAGC	1 cut(s)	383
PspN4I	GGNNCC	1 cut(s)	264
PsuI	RGATCY	1 cut(s)	209
RsaI	GTAC	4 cut(s)	143, 389, 395, 496
RsaNI	GTAC	4 cut(s)	142, 388, 394, 495
RseI	CAYNNNNRTG	1 cut(s)	347
SaqAI	TTAA	1 cut(s)	276
Sau3AI	GATC	2 cut(s)	209, 408
SchI	GAGTC	1 cut(s)	532
ScrFI	CCNGG	2 cut(s)	55, 90
SetI	ASST	8 cut(s)	113, 225, 264, 325, 340, 370, 385, 407
SfaNI	GCATC	5 cut(s)	49, 343, 365, 365, 471
SfcI	CTRYAG	1 cut(s)	171
SmiMI	CAYNNNNRTG	1 cut(s)	347
Sse9I	AATT	3 cut(s)	69, 163, 434
SsiI	CCGC	2 cut(s)	62, 292
SspMI	CTAG	2 cut(s)	153, 527
StyD4I	CCNGG	2 cut(s)	53, 88
TaaI	ACNGT	2 cut(s)	148, 199
TaiI	ACGT	2 cut(s)	340, 370
TasI	AATT	3 cut(s)	69, 163, 434
TatI	WGTACW	2 cut(s)	141, 393
Tru1I	TTAA	1 cut(s)	276
Tru9I	TTAA	1 cut(s)	276
TseFI	GTSAC	1 cut(s)	338
Tsp45I	GTSAC	1 cut(s)	338
TspDTI	ATGAA	4 cut(s)	39, 233, 274, 314
Van91I	CCANNNNNTGG	1 cut(s)	371
XapI	RAATTY	1 cut(s)	434
XbaI	TCTAGA	1 cut(s)	526
XspI	CTAG	2 cut(s)	153, 527
ZraI	GACGTC	1 cut(s)	338
Zsp2I	ATGCAT	1 cut(s)	358

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