Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000005

Orthogroup ID

OG0000288

Physical Location & Seq

Genomic Coordinates Forward (+)

37964137 .. 37968083

Gene Structure 3947 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_5G00357990.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1053 bp

ATGGTTCAACTCCAATTTCACCCTTTCATTTCTCAATTCTGCTTTTGGCTTTCTCAAGTTTCGCCGTCCATGGGGTTTTTGTTTTCACACAGGGCTCTGCTACTACAGAAAGTGCTTTTCCTCCACGCATTTCCTCAGGGAGCAAGGTTGAAAGCCACATTTTCTATGGGAGTTCCTTTTCGGCTCTCTCCGAAATCGTATAAAACAGGGTGGAAGGGGACTCTGCAAGGGAACCGATTATCACGCTCAGAAGGAGCAATGATGGTGATGTCTACGCCAACCGTACATGTGAGAGATACCATTGAACTTGATGAAACTGAAGACAAGATCTTTGAGAGGCTGCTTGGAATGCTTGACCATTATGGACTTAAGACTGAGCTTCGTGTCGCAGGTGGATGGGTCCGTGATAAGTGCAAGGACATCGACATTGCTTTGGAAGATATGATGGGCAGCAAATTTGTTGAGAAGGTGAGAGACCACTTGTTGTCTGTGGGGGAAGTGGTTCAAGGAATTGCTATCATTCCAAGCAATACCGATCAATCAAAACATTTGGAAACGGCGAGGATGCGCATCTTAAATGTATGGGTTGATTTTGTGAACTTACATTGTGAAGAGTACAGTGATGATAGCCAGATTCCTACTATGGTAAATTCTTGCTCTGGGATGTATGGATCTTCTAGAGTTTTGTTTGTTACTGATTTGAGCTTGAGGACATTAGTCACATTACCTTACTTTGAAATAAAGGTAGAGAGTACACTGAAAATAGCCACATCCTCTTACTTTTGTCTAAGGAAGGATGAAACCAGATTTAGGCATTTAGCTCTTAAAGTTCTGAGATCGACAGTGTCTTTTGAGTGTATAAGCTCCATTATTTTGGACAATTCAAAAGCTATGGGAGATTTGACATCTTCATATGTGTTCTGTCTCACAAACAAAATAACACCAAGATCTGGAGTTATGATGGGTGAGGAAAAGGAAACTAGATTATACATGAAGCCAAGTATTTTGGAATTTTATGTAGGGCTGTTCTATCTGGGTTGGAATAAGGTTTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001680 GO:0003674 GO:0003824 GO:0004652 GO:0004810 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0005739 GO:0005759 GO:0006139 GO:0006396 GO:0006399 GO:0006725 GO:0006807 GO:0008033 GO:0008150 GO:0008152 GO:0009987 GO:0010467 GO:0016070 GO:0016740 GO:0016772 GO:0016779 GO:0031123 GO:0031974 GO:0034470 GO:0034641 GO:0034660 GO:0042780 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0043628 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044429 GO:0044444 GO:0044446 GO:0044464 GO:0046483 GO:0052928 GO:0052929 GO:0070013 GO:0070566 GO:0071704 GO:0090304 GO:0140098 GO:0140101 GO:1901360 GO:1990817

KEGG Pathways

Metabolic & Signaling

ko03013 map03013

Pfam Domains

Protein Families

PolyA_pol PolyA_pol_RNAbd

Protein Analysis

350

Amino Acids

39.92

Weight (kDa)

8.58

Isoelectric Point (pI)

44.3

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PolyA_pol	PF01743	127 - 208	1.4e-07	Poly A polymerase head domain

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: OG0000288)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G22660 AT1G22660 AT1G22660 AT1G22660 AT1G22660
fragaria_vesca	FvH4_4g33440 FvH4_4g33440 FvH4_4g33440 FvH4_4g33440 FvH4_4g33440 FvH4_4g33440 FvH4_4g33440 FvH4_4g33440 FvH4_4g33440 FvH4_4g33440 FvH4_4g33440 FvH4_4g33440 FvH4_4g33440 FvH4_4g33440 FvH4_4g33440
malus_domestica	MD05G1045700.v1.1 MD10G1052700.v1.1
prunus_persica	Prupe.6G147900_v2.0.a1 Prupe.6G147900_v2.0.a1
pyrus_communis	pycom05g03810 pycom10g03770
rosa_chinensis	RchiOBHm_Chr3g0457671 RchiOBHm_Chr4g0411681 RchiOBHm_Chr4g0411871 RchiOBHm_Chr4g0412011 RchiOBHm_Chr4g0442691 RchiOBHm_Chr5g0054011 RchiOBHm_Chr7g0192731 RchiOBHm_Chr7g0217301 RchiOBHm_Chr7g0217311
rosa_laevigata	RLG00000002496 RLG00000002497 RLG00000004333 RLG00000005141 RLG00000005991 RLG00000008329 RLG00000008334
rosa_multiflora	Rmu_co8052866.1_g000001 Rmu_sc0000124.1_g000041 Rmu_sc0000711.1_g000018 Rmu_sc0000711.1_g000026 Rmu_sc0000711.1_g000049 Rmu_sc0001260.1_g000024 Rmu_sc0002040.1_g000016 Rmu_sc0003311.1_g000009 Rmu_sc0003541.1_g000049 Rmu_sc0007633.1_g000011 Rmu_sc0007784.1_g000001 Rmu_sc0007843.1_g000002 Rmu_sc0018873.1_g000007 Rmu_sc0037239.1_g000001 Rmu_ssc0000204.1_g000025
rosa_roxburghii	Rroxscaffold_1G00010150 Rroxscaffold_2G00085070 Rroxscaffold_3G00237950 Rroxscaffold_3G00238000 Rroxscaffold_3G00238060 Rroxscaffold_3G00242460 Rroxscaffold_5G00356230 Rroxscaffold_5G00356320 Rroxscaffold_5G00357990 Rroxscaffold_5G00383500
rosa_rugosa	Rorug04G0107400 Rorug04G0107400 Rorug04G0342400.1 Rorug04G0342500.1 Rorug04G0342600.1 Rorug06G0053100 Rorug06G0099700 Rorug07G0004300 Rorug07G0167800 Rorug07G0167900
rosa_samantha	Rh2CG570300 Rh2DG609200 Rh4AG068500 Rh4AG169600 Rh4AG169900 Rh4AG170200 Rh4AG170600 Rh4AG202600 Rh4AG394800 Rh4BG066700 Rh4BG066800 Rh4BG166500 Rh4BG166600 Rh4BG166700 Rh4BG167000 Rh4BG167300 Rh4BG168500 Rh4BG169200 Rh4BG208600 Rh4BG407700 Rh4CG074000 Rh4CG181100 Rh4CG181200 Rh4CG181700 Rh4CG423100 Rh4DG163900 Rh4DG164400 Rh4DG165100 Rh4DG165200 Rh4DG200000 Rh4DG401800 Rh6BG194500 Rh6CG100200 Rh7AG129300 Rh7AG307100 Rh7BG130700 Rh7BG298000 Rh7CG134100 Rh7DG131500 Rh7DG306700
rosa_wichuraiana	Rw0G007750 Rw4G014080 Rw4G014120 Rw4G014180 Rw4G017150 Rw4G034120 Rw7G011060

Restriction Enzyme Sites

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Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	380
Acc16I	TGCGCA	1 cut(s)	569
Acc36I	ACCTGC	1 cut(s)	380
AccB7I	CCANNNNNTGG	1 cut(s)	950
AccI	GTMKAC	1 cut(s)	272
AclWI	GGATC	1 cut(s)	679
AcsI	RAATTY	3 cut(s)	455, 649, 1010
AcuI	CTGAAG	1 cut(s)	339
AfaI	GTAC	3 cut(s)	285, 617, 754
AfiI	CCNNNNNNNGG	3 cut(s)	71, 810, 950
AflII	CTTAAG	1 cut(s)	368
AflIII	ACRYGT	1 cut(s)	286
AgsI	TTSAA	6 cut(s)	8, 151, 305, 506, 737, 885
AluBI	AGCT	5 cut(s)	379, 705, 821, 864, 890
AluI	AGCT	5 cut(s)	379, 705, 821, 864, 890
Alw26I	GTCTC	2 cut(s)	468, 929
AlwI	GGATC	1 cut(s)	679
ApeKI	GCWGC	2 cut(s)	340, 450
ApoI	RAATTY	3 cut(s)	455, 649, 1010
ArsI	GACNNNNNNTTYG	2 cut(s)	314, 346
Asp700I	GAANNNNTTC	1 cut(s)	501
AspLEI	GCGC	1 cut(s)	570
AspS9I	GGNCC	1 cut(s)	400
AsuHPI	GGTGA	4 cut(s)	11, 277, 481, 977
AvaII	GGWCC	1 cut(s)	400
AxyI	CCTNAGG	1 cut(s)	135
BanII	GRGCYC	1 cut(s)	97
BbsI	GAAGAC	1 cut(s)	327
BbvI	GCAGC	2 cut(s)	327, 462
BccI	CCATC	4 cut(s)	256, 390, 439, 955
BceAI	ACGGC	2 cut(s)	49, 573
BcgI	CGANNNNNNTGC	2 cut(s)	403, 437
BcoDI	GTCTC	2 cut(s)	468, 929
BfaI	CTAG	2 cut(s)	678, 981
BfmI	CTRYAG	1 cut(s)	104
BfrI	CTTAAG	1 cut(s)	368
BfuAI	ACCTGC	1 cut(s)	380
BglII	AGATCT	2 cut(s)	327, 947
BisI	GCNGC	2 cut(s)	341, 451
BlsI	GCNGC	2 cut(s)	342, 452
Bme18I	GGWCC	1 cut(s)	400
BmgT120I	GGNCC	1 cut(s)	400
BmiI	GGNNCC	2 cut(s)	233, 401
BmsI	GCATC	2 cut(s)	555, 579
BoxI	GACNNNNGTC	1 cut(s)	716
BpiI	GAAGAC	1 cut(s)	327
BpmI	CTGGAG	1 cut(s)	972
BpuEI	CTTGAG	2 cut(s)	39, 727
BsaBI	GATNNNNATC	1 cut(s)	569
BsaI	GGTCTC	1 cut(s)	468
BsaJI	CCNNGG	1 cut(s)	69
Bsc4I	CCNNNNNNNGG	3 cut(s)	71, 810, 950
Bse21I	CCTNAGG	1 cut(s)	135
Bse3DI	GCAATG	2 cut(s)	264, 426
Bse8I	GATNNNNATC	1 cut(s)	569
BseDI	CCNNGG	1 cut(s)	69
BseGI	GGATG	5 cut(s)	401, 570, 669, 770, 802
BseJI	GATNNNNATC	1 cut(s)	569
BseLI	CCNNNNNNNGG	3 cut(s)	71, 810, 950
BseMI	GCAATG	2 cut(s)	264, 426
BseMII	CTCAG	4 cut(s)	149, 261, 366, 824
BseXI	GCAGC	2 cut(s)	327, 462
BslFI	GGGAC	1 cut(s)	232
BslI	CCNNNNNNNGG	3 cut(s)	71, 810, 950
BsmAI	GTCTC	2 cut(s)	468, 929
BsmFI	GGGAC	1 cut(s)	232
BsmI	GAATGC	1 cut(s)	354
Bso31I	GGTCTC	1 cut(s)	468
Bsp1286I	GDGCHC	1 cut(s)	97
Bsp143I	GATC	5 cut(s)	327, 535, 671, 836, 947
Bsp19I	CCATGG	1 cut(s)	69
BspCNI	CTCAG	4 cut(s)	148, 260, 367, 825
BspLI	GGNNCC	2 cut(s)	233, 401
BspMI	ACCTGC	1 cut(s)	380
BspPI	GGATC	1 cut(s)	679
BspTI	CTTAAG	1 cut(s)	368
BspTNI	GGTCTC	1 cut(s)	468
BsrDI	GCAATG	2 cut(s)	264, 426
BssECI	CCNNGG	1 cut(s)	69
BssMI	GATC	5 cut(s)	327, 535, 671, 836, 947
BssT1I	CCWWGG	1 cut(s)	69
Bst4CI	ACNGT	3 cut(s)	283, 620, 844
Bst6I	CTCTTC	1 cut(s)	606
BstAFI	CTTAAG	1 cut(s)	368
BstDEI	CTNAG	5 cut(s)	135, 247, 375, 788, 833
BstDSI	CCRYGG	1 cut(s)	69
BstF5I	GGATG	5 cut(s)	401, 570, 669, 770, 802
BstHHI	GCGC	1 cut(s)	570
BstKTI	GATC	5 cut(s)	330, 538, 674, 839, 950
BstMAI	GTCTC	2 cut(s)	468, 929
BstMBI	GATC	5 cut(s)	327, 535, 671, 836, 947
BstMWI	GCNNNNNNNGC	1 cut(s)	349
BstNSI	RCATGY	1 cut(s)	290
BstPAI	GACNNNNGTC	1 cut(s)	716
BstSFI	CTRYAG	1 cut(s)	104
BstV1I	GCAGC	2 cut(s)	327, 462
BstV2I	GAAGAC	1 cut(s)	327
BstX2I	RGATCY	3 cut(s)	327, 671, 947
BstXI	CCANNNNNNTGG	1 cut(s)	874
BstYI	RGATCY	3 cut(s)	327, 671, 947
Bsu36I	CCTNAGG	1 cut(s)	135
BtgI	CCRYGG	1 cut(s)	69
BtsCI	GGATG	5 cut(s)	401, 570, 669, 770, 802
BtsIMutI	CAGTG	3 cut(s)	625, 755, 849
BveI	ACCTGC	1 cut(s)	380
CfoI	GCGC	1 cut(s)	570
Cfr13I	GGNCC	1 cut(s)	400
Csp6I	GTAC	3 cut(s)	284, 616, 753
CviAII	CATG	3 cut(s)	70, 287, 991
CviQI	GTAC	3 cut(s)	284, 616, 753
DdeI	CTNAG	5 cut(s)	135, 247, 375, 788, 833
DpnI	GATC	5 cut(s)	329, 537, 673, 838, 949
DpnII	GATC	5 cut(s)	327, 535, 671, 836, 947
Eam1104I	CTCTTC	1 cut(s)	606
EarI	CTCTTC	1 cut(s)	606
Eco130I	CCWWGG	1 cut(s)	69
Eco24I	GRGCYC	1 cut(s)	97
Eco31I	GGTCTC	1 cut(s)	468
Eco47I	GGWCC	1 cut(s)	400
Eco57I	CTGAAG	1 cut(s)	339
Eco81I	CCTNAGG	1 cut(s)	135
EcoT14I	CCWWGG	1 cut(s)	69
EcoT38I	GRGCYC	1 cut(s)	97
ErhI	CCWWGG	1 cut(s)	69
FaeI	CATG	3 cut(s)	73, 290, 994
FaqI	GGGAC	1 cut(s)	232
FatI	CATG	3 cut(s)	69, 286, 990
FauNDI	CATATG	1 cut(s)	913
FblI	GTMKAC	1 cut(s)	272
Fnu4HI	GCNGC	2 cut(s)	341, 451
FokI	GGATG	5 cut(s)	408, 577, 676, 757, 809
FriOI	GRGCYC	1 cut(s)	97
Fsp4HI	GCNGC	2 cut(s)	341, 451
FspAI	RTGCGCAY	1 cut(s)	569
FspBI	CTAG	2 cut(s)	678, 981
FspI	TGCGCA	1 cut(s)	569
GlaI	GCGC	1 cut(s)	569
GluI	GCNGC	2 cut(s)	341, 451
GsuI	CTGGAG	1 cut(s)	972
HhaI	GCGC	1 cut(s)	570
Hin1II	CATG	3 cut(s)	73, 290, 994
Hin6I	GCGC	1 cut(s)	568
HinP1I	GCGC	1 cut(s)	568
HinfI	GANTC	2 cut(s)	220, 634
HphI	GGTGA	4 cut(s)	11, 277, 481, 977
Hpy166II	GTNNAC	3 cut(s)	273, 598, 755
Hpy188I	TCNGA	3 cut(s)	192, 250, 834
Hpy188III	TCNNGA	2 cut(s)	678, 951
Hpy8I	GTNNAC	3 cut(s)	273, 598, 755
HpyAV	CCTTC	4 cut(s)	208, 245, 460, 787
HpyCH4III	ACNGT	3 cut(s)	283, 620, 844
HpyCH4V	TGCA	2 cut(s)	226, 414
HpyF10VI	GCNNNNNNNGC	1 cut(s)	349
HpyF3I	CTNAG	5 cut(s)	135, 247, 375, 788, 833
Hsp92II	CATG	3 cut(s)	73, 290, 994
HspAI	GCGC	1 cut(s)	568
Kzo9I	GATC	5 cut(s)	327, 535, 671, 836, 947
LmnI	GCTCC	3 cut(s)	140, 254, 869
LpnPI	CCDG	9 cut(s)	76, 122, 192, 375, 644, 645, 817, 936, 1019
Lsp1109I	GCAGC	2 cut(s)	327, 462
LweI	GCATC	2 cut(s)	555, 579
MaeI	CTAG	2 cut(s)	678, 981
MaeIII	GTNAC	2 cut(s)	691, 718
MalI	GATC	5 cut(s)	329, 537, 673, 838, 949
MboI	GATC	5 cut(s)	327, 535, 671, 836, 947
MboII	GAAGA	5 cut(s)	332, 449, 623, 666, 900
MflI	RGATCY	3 cut(s)	327, 671, 947
MhlI	GDGCHC	1 cut(s)	97
MluCI	AATT	7 cut(s)	14, 35, 455, 510, 649, 880, 1010
MlyI	GAGTC	1 cut(s)	214
MmeI	TCCRAC	1 cut(s)	1019
MnlI	CCTC	7 cut(s)	131, 144, 330, 555, 702, 784, 961
MroXI	GAANNNNTTC	1 cut(s)	501
MseI	TTAA	3 cut(s)	369, 575, 825
MspCI	CTTAAG	1 cut(s)	368
Mva1269I	GAATGC	1 cut(s)	354
MwoI	GCNNNNNNNGC	1 cut(s)	349
NcoI	CCATGG	1 cut(s)	69
NdeI	CATATG	1 cut(s)	913
NdeII	GATC	5 cut(s)	327, 535, 671, 836, 947
NlaIII	CATG	3 cut(s)	73, 290, 994
NlaIV	GGNNCC	2 cut(s)	233, 401
NmuCI	GTSAC	1 cut(s)	718
NsbI	TGCGCA	1 cut(s)	569
NspI	RCATGY	1 cut(s)	290
PaqCI	CACCTGC	1 cut(s)	380
PciI	ACATGT	1 cut(s)	286
PctI	GAATGC	1 cut(s)	354
PdmI	GAANNNNTTC	1 cut(s)	501
PfeI	GAWTC	1 cut(s)	634
PflFI	GACNNNGTC	1 cut(s)	844
PflMI	CCANNNNNTGG	1 cut(s)	950
PkrI	GCNGC	2 cut(s)	342, 452
PleI	GAGTC	1 cut(s)	214
PpsI	GAGTC	1 cut(s)	214
PscI	ACATGT	1 cut(s)	286
PshAI	GACNNNNGTC	1 cut(s)	716
PspN4I	GGNNCC	2 cut(s)	233, 401
PspPI	GGNCC	1 cut(s)	400
PsuI	RGATCY	3 cut(s)	327, 671, 947
PsyI	GACNNNGTC	1 cut(s)	844
RsaI	GTAC	3 cut(s)	285, 617, 754
RsaNI	GTAC	3 cut(s)	284, 616, 753
SaqAI	TTAA	3 cut(s)	369, 575, 825
SatI	GCNGC	2 cut(s)	341, 451
Sau3AI	GATC	5 cut(s)	327, 535, 671, 836, 947
Sau96I	GGNCC	1 cut(s)	400
SchI	GAGTC	1 cut(s)	214
SduI	GDGCHC	1 cut(s)	97
SfaNI	GCATC	2 cut(s)	555, 579
SfcI	CTRYAG	1 cut(s)	104
SinI	GGWCC	1 cut(s)	400
SmlI	CTYRAG	3 cut(s)	54, 368, 706
SmoI	CTYRAG	3 cut(s)	54, 368, 706
Sse9I	AATT	7 cut(s)	14, 35, 455, 510, 649, 880, 1010
SspMI	CTAG	2 cut(s)	678, 981
StyI	CCWWGG	1 cut(s)	69
TaaI	ACNGT	3 cut(s)	283, 620, 844
TaqI	TCGA	2 cut(s)	423, 839
TasI	AATT	7 cut(s)	14, 35, 455, 510, 649, 880, 1010
TatI	WGTACW	2 cut(s)	615, 752
TfiI	GAWTC	1 cut(s)	634
Tru1I	TTAA	3 cut(s)	369, 575, 825
Tru9I	TTAA	3 cut(s)	369, 575, 825
TscAI	CASTG	3 cut(s)	625, 762, 849
TseFI	GTSAC	1 cut(s)	718
TseI	GCWGC	2 cut(s)	340, 450
Tsp45I	GTSAC	1 cut(s)	718
TspDTI	ATGAA	5 cut(s)	16, 327, 813, 900, 1007
TspGWI	ACGGA	1 cut(s)	392
TspRI	CASTG	3 cut(s)	625, 762, 849
Tth111I	GACNNNGTC	1 cut(s)	844
Van91I	CCANNNNNTGG	1 cut(s)	950
Vha464I	CTTAAG	1 cut(s)	368
VpaK11BI	GGWCC	1 cut(s)	400
XapI	RAATTY	3 cut(s)	455, 649, 1010
XbaI	TCTAGA	1 cut(s)	677
XceI	RCATGY	1 cut(s)	290
XcmI	CCANNNNNNNNNTGG	1 cut(s)	163
XmiI	GTMKAC	1 cut(s)	272
XmnI	GAANNNNTTC	1 cut(s)	501
XspI	CTAG	2 cut(s)	678, 981

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