Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4C

Orthogroup ID

OG0000288

Physical Location & Seq

Genomic Coordinates Forward (+)

39225931 .. 39229631

Gene Structure 3701 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4CG181100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1194 bp

ATGGTGATGTCTACGCTAACTGTACATGTGAGAGATACCATTGAACTTGATGAAACTGAAGAGAAGATCTTTGAAAGGCTGCTTGGGACGCTCAACCATTATGGACTTAAGACTGAGCTTCGTGTCGCAGGTGGATGGGTCCGTGATAAGCTTCTGGGAAAAGAGTGCAAGGACATTGACATTGCTTTGAAAGATATGATGGGCAGCAAGTTTGTTGAGAAGGTGAGAGACTACTTGTTGTCTGTGGGGGAAGAGGTTCAAGGAATCGCTATCATTCCAAGTAATCCCGATCAATCAAAACATTTGGAAACGGCGAGGATGCGCATCTTAAATGTATGGGTTGATTTTGTGAACTTACGTTGTGAAGAGTACAGTGATGATAGCCGCATTCCCACTATGCAAAAGTATGGCACACCAGAACAGGATGCACTGAGAAGGGATCTAACTATTAACAGCTTATTTTACAATATCAATACCAAATCCATTGAAGATTGGACTAATAGAGGAGTTGAAGATCTAAAATGTGGGAAAATTGCTAGTCCTTTACCACCAAAGGATACATTTATGGAGGATCCGCTACGAGTTCTTCGAGCTATCCGTTTTGGTGCAAGGTTCGGATTCATACTCGATGAACAACTAAAGGAAGCTGCTGCCTGTGATGAAGTGAAAGCTGCTCTATCAGCTAAAATTAGCAGAGAGCGAATTGGAGCTGAAATTGATCTGATGATGTCCGGAAACCAACCTGCCCAAGCTATGACCTATATATGTGACTTGAAGTTATTTTGGGTTGTCTTCAGTCTTCATCCACAGTGTGAGCCATCAGAAGGATGCGACAGCGATTGTGTTGCGTACTTGGATTGTACTTGGAATCTTATTCAATTAGTGGGGCACTCTACCTTCAATGACGAACAAAGAAGGCTCTCCTTTTATGCTGCAATGTTCCTTCCACTTAGGAAAACCATGTATAATGATAGGAAAGCAAAAGATGTTCCTGTCGTGAATTATATTTTCAGAGACTCCCTTAAACAAAGAGTCAGCGATGCTGAAACTGTTATTAATTTACACAATGCATTGGAGAAGTTTTTGTCTTTGCTTCCTCACTTTGTACCAAATGGGGATGTAAAACTCGCCGAAGTTGATTTGGGAAGAGAATATGTTGATGTGCCTCTTACATCGAAAGAATCAAAACTCTGA

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

397

Amino Acids

45.31

Weight (kDa)

5.32

Isoelectric Point (pI)

40.73

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PolyA_pol	PF01743	40 - 178	5e-30	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

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	119
Acc16I	TGCGCA	1 cut(s)	323
Acc36I	ACCTGC	2 cut(s)	119, 751
AccI	GTMKAC	1 cut(s)	11
AccIII	TCCGGA	1 cut(s)	731
AciI	CCGC	2 cut(s)	385, 575
AclWI	GGATC	3 cut(s)	447, 566, 579
AcuI	CTGAAG	2 cut(s)	78, 778
AdeI	CACNNNGTG	1 cut(s)	812
AfaI	GTAC	5 cut(s)	24, 371, 851, 862, 1107
AfiI	CCNNNNNNNGG	1 cut(s)	824
AflII	CTTAAG	1 cut(s)	107
AflIII	ACRYGT	1 cut(s)	25
AgsI	TTSAA	9 cut(s)	44, 74, 190, 260, 488, 512, 775, 878, 901
AjuI	GAANNNNNNNTTGG	2 cut(s)	66, 98
AluBI	AGCT	9 cut(s)	118, 151, 456, 593, 647, 671, 683, 710, 752
AluI	AGCT	9 cut(s)	118, 151, 456, 593, 647, 671, 683, 710, 752
Alw26I	GTCTC	2 cut(s)	222, 1008
AlwI	GGATC	3 cut(s)	447, 566, 579
Aor13HI	TCCGGA	1 cut(s)	731
ApeKI	GCWGC	6 cut(s)	79, 204, 647, 650, 671, 932
AseI	ATTAAT	1 cut(s)	1056
Asp700I	GAANNNNTTC	1 cut(s)	255
AspLEI	GCGC	1 cut(s)	324
AspS9I	GGNCC	1 cut(s)	139
AsuHPI	GGTGA	2 cut(s)	16, 235
AvaII	GGWCC	1 cut(s)	139
BaeGI	GKGCMC	1 cut(s)	891
BamHI	GGATCC	1 cut(s)	571
BbsI	GAAGAC	2 cut(s)	784, 791
BbvI	GCAGC	6 cut(s)	66, 216, 634, 637, 658, 919
BccI	CCATC	3 cut(s)	129, 193, 826
BceAI	ACGGC	1 cut(s)	327
BcgI	CGANNNNNNTGC	2 cut(s)	827, 861
BciVI	GTATCC	1 cut(s)	550
BcoDI	GTCTC	2 cut(s)	222, 1008
BfaI	CTAG	1 cut(s)	537
BfrI	CTTAAG	1 cut(s)	107
BfuAI	ACCTGC	2 cut(s)	119, 751
BfuI	GTATCC	1 cut(s)	550
BglII	AGATCT	2 cut(s)	66, 514
BisI	GCNGC	7 cut(s)	80, 205, 385, 648, 651, 672, 933
BlsI	GCNGC	7 cut(s)	81, 206, 386, 649, 652, 673, 934
Bme18I	GGWCC	1 cut(s)	139
BmgT120I	GGNCC	1 cut(s)	139
BmiI	GGNNCC	2 cut(s)	140, 573
BmsI	GCATC	5 cut(s)	309, 333, 415, 818, 1030
BpiI	GAAGAC	2 cut(s)	784, 791
BsaBI	GATNNNNATC	1 cut(s)	323
BsaWI	WCCGGW	1 cut(s)	731
Bsc4I	CCNNNNNNNGG	1 cut(s)	824
Bse3DI	GCAATG	2 cut(s)	180, 942
Bse8I	GATNNNNATC	1 cut(s)	323
BseAI	TCCGGA	1 cut(s)	731
BseGI	GGATG	6 cut(s)	140, 324, 430, 802, 833, 1123
BseJI	GATNNNNATC	1 cut(s)	323
BseLI	CCNNNNNNNGG	1 cut(s)	824
BseMI	GCAATG	2 cut(s)	180, 942
BseMII	CTCAG	2 cut(s)	105, 422
BseRI	GAGGAG	1 cut(s)	519
BseSI	GKGCMC	1 cut(s)	891
BseXI	GCAGC	6 cut(s)	66, 216, 634, 637, 658, 919
BsiSI	CCGG	1 cut(s)	732
BslFI	GGGAC	1 cut(s)	100
BslI	CCNNNNNNNGG	1 cut(s)	824
BsmAI	GTCTC	2 cut(s)	222, 1008
BsmFI	GGGAC	1 cut(s)	100
BsmI	GAATGC	1 cut(s)	387
Bsp1286I	GDGCHC	1 cut(s)	891
Bsp13I	TCCGGA	1 cut(s)	731
Bsp1407I	TGTACA	1 cut(s)	22
Bsp143I	GATC	6 cut(s)	66, 289, 439, 514, 571, 718
BspACI	CCGC	2 cut(s)	385, 575
BspCNI	CTCAG	2 cut(s)	106, 423
BspEI	TCCGGA	1 cut(s)	731
BspLI	GGNNCC	2 cut(s)	140, 573
BspMI	ACCTGC	2 cut(s)	119, 751
BspPI	GGATC	3 cut(s)	447, 566, 579
BspTI	CTTAAG	1 cut(s)	107
BsrDI	GCAATG	2 cut(s)	180, 942
BsrGI	TGTACA	1 cut(s)	22
BssMI	GATC	6 cut(s)	66, 289, 439, 514, 571, 718
Bst4CI	ACNGT	4 cut(s)	22, 374, 810, 1051
Bst6I	CTCTTC	4 cut(s)	54, 246, 360, 1141
BstAFI	CTTAAG	1 cut(s)	107
BstAUI	TGTACA	1 cut(s)	22
BstDEI	CTNAG	3 cut(s)	114, 431, 950
BstF5I	GGATG	6 cut(s)	140, 324, 430, 802, 833, 1123
BstHHI	GCGC	1 cut(s)	324
BstKTI	GATC	6 cut(s)	69, 292, 442, 517, 574, 721
BstMAI	GTCTC	2 cut(s)	222, 1008
BstMBI	GATC	6 cut(s)	66, 289, 439, 514, 571, 718
BstMWI	GCNNNNNNNGC	2 cut(s)	88, 680
BstNSI	RCATGY	1 cut(s)	29
BstSLI	GKGCMC	1 cut(s)	891
BstV1I	GCAGC	6 cut(s)	66, 216, 634, 637, 658, 919
BstV2I	GAAGAC	2 cut(s)	784, 791
BstX2I	RGATCY	4 cut(s)	66, 439, 514, 571
BstYI	RGATCY	4 cut(s)	66, 439, 514, 571
BsuI	GTATCC	1 cut(s)	550
BtgZI	GCGATG	1 cut(s)	1053
BtsCI	GGATG	6 cut(s)	140, 324, 430, 802, 833, 1123
BtsIMutI	CAGTG	3 cut(s)	379, 428, 815
BveI	ACCTGC	2 cut(s)	119, 751
CfoI	GCGC	1 cut(s)	324
Cfr13I	GGNCC	1 cut(s)	139
CseI	GACGC	1 cut(s)	97
Csp6I	GTAC	5 cut(s)	23, 370, 850, 861, 1106
CviAII	CATG	2 cut(s)	26, 961
CviQI	GTAC	5 cut(s)	23, 370, 850, 861, 1106
DdeI	CTNAG	3 cut(s)	114, 431, 950
DpnI	GATC	6 cut(s)	68, 291, 441, 516, 573, 720
DpnII	GATC	6 cut(s)	66, 289, 439, 514, 571, 718
DraIII	CACNNNGTG	1 cut(s)	812
Eam1104I	CTCTTC	4 cut(s)	54, 246, 360, 1141
EarI	CTCTTC	4 cut(s)	54, 246, 360, 1141
Eco47I	GGWCC	1 cut(s)	139
Eco57I	CTGAAG	2 cut(s)	78, 778
EcoT22I	ATGCAT	1 cut(s)	1072
FaeI	CATG	2 cut(s)	29, 964
FaqI	GGGAC	1 cut(s)	100
FatI	CATG	2 cut(s)	25, 960
FblI	GTMKAC	1 cut(s)	11
Fnu4HI	GCNGC	7 cut(s)	80, 205, 385, 648, 651, 672, 933
FokI	GGATG	6 cut(s)	147, 331, 437, 789, 840, 1130
Fsp4HI	GCNGC	7 cut(s)	80, 205, 385, 648, 651, 672, 933
FspAI	RTGCGCAY	1 cut(s)	323
FspBI	CTAG	1 cut(s)	537
FspI	TGCGCA	1 cut(s)	323
GlaI	GCGC	1 cut(s)	323
GluI	GCNGC	7 cut(s)	80, 205, 385, 648, 651, 672, 933
HapII	CCGG	1 cut(s)	732
HgaI	GACGC	1 cut(s)	97
HhaI	GCGC	1 cut(s)	324
Hin1II	CATG	2 cut(s)	29, 964
Hin6I	GCGC	1 cut(s)	322
HinP1I	GCGC	1 cut(s)	322
HindIII	AAGCTT	1 cut(s)	149
HinfI	GANTC	6 cut(s)	264, 618, 868, 1016, 1032, 1181
HpaII	CCGG	1 cut(s)	732
HphI	GGTGA	2 cut(s)	16, 235
Hpy166II	GTNNAC	2 cut(s)	12, 352
Hpy188I	TCNGA	5 cut(s)	617, 723, 823, 1013, 1193
Hpy188III	TCNNGA	3 cut(s)	287, 732, 997
Hpy8I	GTNNAC	2 cut(s)	12, 352
HpyAV	CCTTC	6 cut(s)	214, 429, 818, 907, 909, 953
HpyCH4III	ACNGT	4 cut(s)	22, 374, 810, 1051
HpyCH4IV	ACGT	1 cut(s)	358
HpyCH4V	TGCA	6 cut(s)	168, 400, 428, 608, 935, 1070
HpyF10VI	GCNNNNNNNGC	2 cut(s)	88, 680
HpyF3I	CTNAG	3 cut(s)	114, 431, 950
HpySE526I	ACGT	1 cut(s)	358
Hsp92II	CATG	2 cut(s)	29, 964
HspAI	GCGC	1 cut(s)	322
Kpn2I	TCCGGA	1 cut(s)	731
Kzo9I	GATC	6 cut(s)	66, 289, 439, 514, 571, 718
LmnI	GCTCC	1 cut(s)	707
LpnPI	CCDG	8 cut(s)	114, 140, 407, 429, 667, 745, 756, 1005
Lsp1109I	GCAGC	6 cut(s)	66, 216, 634, 637, 658, 919
LweI	GCATC	5 cut(s)	309, 333, 415, 818, 1030
MaeI	CTAG	1 cut(s)	537
MaeII	ACGT	1 cut(s)	358
MaeIII	GTNAC	1 cut(s)	767
MalI	GATC	6 cut(s)	68, 291, 441, 516, 573, 720
MboI	GATC	6 cut(s)	66, 289, 439, 514, 571, 718
MflI	RGATCY	4 cut(s)	66, 439, 514, 571
MhlI	GDGCHC	1 cut(s)	891
MluCI	AATT	7 cut(s)	531, 687, 702, 714, 878, 1000, 1057
MlyI	GAGTC	2 cut(s)	1010, 1041
MnlI	CCTC	6 cut(s)	247, 309, 497, 562, 1107, 1176
Mph1103I	ATGCAT	1 cut(s)	1072
MroI	TCCGGA	1 cut(s)	731
MroXI	GAANNNNTTC	1 cut(s)	255
MseI	TTAA	5 cut(s)	108, 329, 450, 1023, 1056
MspCI	CTTAAG	1 cut(s)	107
MspI	CCGG	1 cut(s)	732
Mva1269I	GAATGC	1 cut(s)	387
MwoI	GCNNNNNNNGC	2 cut(s)	88, 680
NdeII	GATC	6 cut(s)	66, 289, 439, 514, 571, 718
NlaIII	CATG	2 cut(s)	29, 964
NlaIV	GGNNCC	2 cut(s)	140, 573
NmuCI	GTSAC	1 cut(s)	767
NsbI	TGCGCA	1 cut(s)	323
NsiI	ATGCAT	1 cut(s)	1072
NspI	RCATGY	1 cut(s)	29
PaqCI	CACCTGC	1 cut(s)	119
PciI	ACATGT	1 cut(s)	25
PcsI	WCGNNNNNNNCGW	2 cut(s)	586, 595
PctI	GAATGC	1 cut(s)	387
PdmI	GAANNNNTTC	1 cut(s)	255
PfeI	GAWTC	4 cut(s)	264, 618, 868, 1181
PkrI	GCNGC	7 cut(s)	81, 206, 386, 649, 652, 673, 934
PleI	GAGTC	2 cut(s)	1010, 1040
PpsI	GAGTC	2 cut(s)	1010, 1040
PscI	ACATGT	1 cut(s)	25
PshBI	ATTAAT	1 cut(s)	1056
PspN4I	GGNNCC	2 cut(s)	140, 573
PspPI	GGNCC	1 cut(s)	139
PsuI	RGATCY	4 cut(s)	66, 439, 514, 571
RsaI	GTAC	5 cut(s)	24, 371, 851, 862, 1107
RsaNI	GTAC	5 cut(s)	23, 370, 850, 861, 1106
SaqAI	TTAA	5 cut(s)	108, 329, 450, 1023, 1056
SatI	GCNGC	7 cut(s)	80, 205, 385, 648, 651, 672, 933
Sau3AI	GATC	6 cut(s)	66, 289, 439, 514, 571, 718
Sau96I	GGNCC	1 cut(s)	139
SchI	GAGTC	2 cut(s)	1010, 1041
SduI	GDGCHC	1 cut(s)	891
SfaNI	GCATC	5 cut(s)	309, 333, 415, 818, 1030
SinI	GGWCC	1 cut(s)	139
SmlI	CTYRAG	1 cut(s)	107
SmoI	CTYRAG	1 cut(s)	107
Sse9I	AATT	7 cut(s)	531, 687, 702, 714, 878, 1000, 1057
SsiI	CCGC	2 cut(s)	385, 575
SspMI	CTAG	1 cut(s)	537
TaaI	ACNGT	4 cut(s)	22, 374, 810, 1051
TaiI	ACGT	1 cut(s)	361
TaqI	TCGA	3 cut(s)	589, 627, 1175
TasI	AATT	7 cut(s)	531, 687, 702, 714, 878, 1000, 1057
TatI	WGTACW	3 cut(s)	22, 369, 860
TauI	GCSGC	1 cut(s)	387
TfiI	GAWTC	4 cut(s)	264, 618, 868, 1181
Tru1I	TTAA	5 cut(s)	108, 329, 450, 1023, 1056
Tru9I	TTAA	5 cut(s)	108, 329, 450, 1023, 1056
TscAI	CASTG	3 cut(s)	379, 435, 815
TseFI	GTSAC	1 cut(s)	767
TseI	GCWGC	6 cut(s)	79, 204, 647, 650, 671, 932
Tsp45I	GTSAC	1 cut(s)	767
TspDTI	ATGAA	5 cut(s)	66, 610, 645, 675, 791
TspGWI	ACGGA	2 cut(s)	131, 587
TspRI	CASTG	3 cut(s)	379, 435, 815
Vha464I	CTTAAG	1 cut(s)	107
VpaK11BI	GGWCC	1 cut(s)	139
VspI	ATTAAT	1 cut(s)	1056
XceI	RCATGY	1 cut(s)	29
XmiI	GTMKAC	1 cut(s)	11
XmnI	GAANNNNTTC	1 cut(s)	255
XspI	CTAG	1 cut(s)	537
Zsp2I	ATGCAT	1 cut(s)	1072

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