Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5C

Orthogroup ID

OG0005143

Physical Location & Seq

Genomic Coordinates Reverse (-)

60286909 .. 60289931

Gene Structure 3023 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5CG435700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 954 bp

ATGAAGAGGGAAGACAAATACATTCGTCTTTTCCGATTCCCTTCACAAAATCCACATCCTTCTTCTCCACTCTGCCGTTCCAATCGCAACTTGTTTTTAGCCAGATATTTGCAAATGGGACTACAAGAAGGATCAGATAGATTCAAGAAACAGCAAGGGCAGTGCCAGTCAACCCGTATCAGCATTGCCTCTAACTATAGGGCCACAGAAACTCCGAAAGCTGTGTCTGCGGCAGCTGCTAGGGTTCCTGCTCCATCTGTCAAATTTTCAGATAATACGGAGAGACTCCAACACATTCACAGCATACGGCATGCTCCTGATGGAGCTCAGGTCAAGCGTGTTATAGACCTGCTGCTGAAGACAAGGCAGGCTTTCACGCCGGAGGGAATTTATGAAAATTGTTCTGTCGATGTGAACCACAATGAAACTGTCTTCAAGTGTCTGACAGATAACCCAAAAGTTCACTATGATGGGAAATGCTTCTCTTATAAGTCCAAGCATGCCGTGAAGGACAGAAGTCAAGTACTGTCCTTAGTACAGAAATTTCCAGAGGGCGTACCTGTGATTGATCTCAAGGATGCATACCCTGGCGCAATGGAGGACTTGCAGGCTCTAAAAGCTGCTGGTGACATCTGGCTTCTCTCAAGCTTCAATGCGCAAGAGGATATAGCTTATCCGAATGACCCTAAGTTGCCCCGCATCAAGGTTGATGATGACCTTAAAAAGTGCTTCAGGAAAATAGAATTGCCTAGCAATATGGTTGACATTGAGAAGTATCTCGAGAAGAATGGGATGAAGCCTTCTACAGACTCCGCAAGGAGGAGTGCTATGGTCCAGAGTCTAGTTGGGTCTTCTAATTGCAAGGAGAAGAAGAAGAAGAAGCCTGAGATCAGCAAGAGGACCAAGCTAACCAATGCCCATCTTCCTGAGCTTTTCGAGAACTGGAAAAACTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000428 GO:0000988 GO:0000990 GO:0000991 GO:0003674 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005667 GO:0005673 GO:0006139 GO:0006351 GO:0006352 GO:0006355 GO:0006357 GO:0006366 GO:0006367 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009889 GO:0009987 GO:0010467 GO:0010468 GO:0010556 GO:0016070 GO:0016591 GO:0018130 GO:0019219 GO:0019222 GO:0019438 GO:0030880 GO:0031323 GO:0031326 GO:0031974 GO:0031981 GO:0032774 GO:0032991 GO:0034641 GO:0034645 GO:0034654 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044464 GO:0044798 GO:0046483 GO:0050789 GO:0050794 GO:0051171 GO:0051252 GO:0055029 GO:0060255 GO:0061695 GO:0065007 GO:0070013 GO:0071704 GO:0080090 GO:0090304 GO:0090575 GO:0097659 GO:0140110 GO:1901360 GO:1901362 GO:1901576 GO:1902494 GO:1903506 GO:1990234 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

ko03022 ko05169 ko05203 map03022 map05169 map05203

Pfam Domains

Protein Families

TFIIE_beta

Protein Analysis

317

Amino Acids

36.05

Weight (kDa)

9.51

Isoelectric Point (pI)

47.29

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
TFIIE_beta	PF02186	111 - 169	6.8e-06	TFIIE beta subunit core domain
TFA2_Winged_2	PF18121	170 - 227	2.7e-14	TFA2 Winged helix domain 2

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: OG0005143)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G20330
fragaria_vesca	FvH4_3g33500 FvH4_5g01870
malus_domestica	MD06G1076900.v1.1 MD14G1098300.v1.1
prunus_persica	Prupe.5G094900_v2.0.a1 Prupe.5G094900_v2.0.a1 Prupe.5G094900_v2.0.a1
pyrus_communis	pycom06g07450 pycom14g09650
rosa_chinensis	RchiOBHm_Chr5g0060921 RchiOBHm_Chr7g0198651
rosa_laevigata	RLG00000003851 RLG00000035413
rosa_multiflora	Rmu_sc0000420.1_g000016 Rmu_sc0009374.1_g000001
rosa_roxburghii	Rroxscaffold_1G00019720 Rroxscaffold_3G00257560
rosa_rugosa	Rorug05G0334900 Rorug05G0335000 Rorug07G0048900
rosa_samantha	Rh5AG397900 Rh5BG410500 Rh5CG435700 Rh5DG425100 Rh7AG172500 Rh7BG176000 Rh7CG181900
rosa_wichuraiana	Rw5G037520 Rw7G015140

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	489
Acc16I	TGCGCA	1 cut(s)	657
Acc36I	ACCTGC	1 cut(s)	357
AciI	CCGC	3 cut(s)	230, 697, 813
AclWI	GGATC	1 cut(s)	139
AcsI	RAATTY	3 cut(s)	263, 387, 542
AcuI	CTGAAG	2 cut(s)	377, 715
AfaI	GTAC	3 cut(s)	525, 537, 558
AfiI	CCNNNNNNNGG	2 cut(s)	703, 819
AgsI	TTSAA	3 cut(s)	145, 436, 652
AjnI	CCWGG	1 cut(s)	586
AluBI	AGCT	8 cut(s)	221, 236, 326, 620, 648, 671, 907, 931
AluI	AGCT	8 cut(s)	221, 236, 326, 620, 648, 671, 907, 931
Alw21I	GWGCWC	1 cut(s)	328
Alw26I	GTCTC	1 cut(s)	277
AlwI	GGATC	1 cut(s)	139
Ama87I	CYCGRG	1 cut(s)	779
AoxI	GGCC	1 cut(s)	201
ApeKI	GCWGC	4 cut(s)	233, 236, 352, 620
ApoI	RAATTY	3 cut(s)	263, 387, 542
ArsI	GACNNNNNNTTYG	2 cut(s)	209, 241
Asp700I	GAANNNNTTC	1 cut(s)	479
AspLEI	GCGC	2 cut(s)	593, 658
AspS9I	GGNCC	3 cut(s)	201, 832, 900
AsuHPI	GGTGA	1 cut(s)	638
AvaI	CYCGRG	1 cut(s)	779
AvaII	GGWCC	2 cut(s)	832, 900
BanII	GRGCYC	1 cut(s)	328
BbsI	GAAGAC	4 cut(s)	18, 365, 424, 843
Bbv12I	GWGCWC	1 cut(s)	328
BbvI	GCAGC	4 cut(s)	223, 245, 339, 607
BccI	CCATC	4 cut(s)	262, 314, 464, 927
BceAI	ACGGC	3 cut(s)	60, 323, 488
BciT130I	CCWGG	1 cut(s)	588
BcoDI	GTCTC	1 cut(s)	277
BfaI	CTAG	4 cut(s)	240, 750, 842, 952
BfmI	CTRYAG	2 cut(s)	196, 804
BfuAI	ACCTGC	1 cut(s)	357
BisI	GCNGC	5 cut(s)	231, 234, 237, 353, 621
BlsI	GCNGC	5 cut(s)	232, 235, 238, 354, 622
BmcAI	AGTACT	1 cut(s)	525
Bme1390I	CCNGG	1 cut(s)	588
Bme18I	GGWCC	2 cut(s)	832, 900
BmeT110I	CYCGRG	1 cut(s)	779
BmgT120I	GGNCC	3 cut(s)	201, 832, 900
BmiI	GGNNCC	1 cut(s)	246
BmrFI	CCNGG	1 cut(s)	588
BmsI	GCATC	2 cut(s)	568, 708
BoxI	GACNNNNGTC	1 cut(s)	516
BpiI	GAAGAC	4 cut(s)	18, 365, 424, 843
Bpu10I	CCTNAGC	2 cut(s)	327, 927
BpuEI	CTTGAG	2 cut(s)	557, 628
BsaJI	CCNNGG	1 cut(s)	586
BsaXI	ACNNNNNCTCC	4 cut(s)	196, 226, 315, 345
Bsc4I	CCNNNNNNNGG	2 cut(s)	703, 819
Bse1I	ACTGG	2 cut(s)	166, 947
Bse3DI	GCAATG	2 cut(s)	183, 600
BseBI	CCWGG	1 cut(s)	588
BseDI	CCNNGG	1 cut(s)	586
BseGI	GGATG	3 cut(s)	55, 583, 798
BseLI	CCNNNNNNNGG	2 cut(s)	703, 819
BseMI	GCAATG	2 cut(s)	183, 600
BseMII	CTCAG	3 cut(s)	341, 876, 918
BseNI	ACTGG	2 cut(s)	166, 947
BseRI	GAGGAG	1 cut(s)	835
BseXI	GCAGC	4 cut(s)	223, 245, 339, 607
BshFI	GGCC	1 cut(s)	203
BsiHKAI	GWGCWC	1 cut(s)	328
BsiHKCI	CYCGRG	1 cut(s)	779
BsiSI	CCGG	1 cut(s)	380
BslFI	GGGAC	1 cut(s)	132
BslI	CCNNNNNNNGG	2 cut(s)	703, 819
BsmAI	GTCTC	1 cut(s)	277
BsmFI	GGGAC	1 cut(s)	132
BsnI	GGCC	1 cut(s)	203
BsoBI	CYCGRG	1 cut(s)	779
Bsp1286I	GDGCHC	1 cut(s)	328
Bsp143I	GATC	3 cut(s)	131, 568, 888
BspACI	CCGC	3 cut(s)	230, 697, 813
BspANI	GGCC	1 cut(s)	203
BspCNI	CTCAG	3 cut(s)	340, 877, 919
BspLI	GGNNCC	1 cut(s)	246
BspMI	ACCTGC	1 cut(s)	357
BspPI	GGATC	1 cut(s)	139
BsrDI	GCAATG	2 cut(s)	183, 600
BsrI	ACTGG	2 cut(s)	166, 947
BssECI	CCNNGG	1 cut(s)	586
BssMI	GATC	3 cut(s)	131, 568, 888
Bst2UI	CCWGG	1 cut(s)	588
Bst4CI	ACNGT	2 cut(s)	430, 528
BstC8I	GCNNGC	4 cut(s)	312, 369, 501, 609
BstDEI	CTNAG	5 cut(s)	327, 532, 687, 885, 927
BstF5I	GGATG	3 cut(s)	55, 583, 798
BstHHI	GCGC	2 cut(s)	593, 658
BstKTI	GATC	3 cut(s)	134, 571, 891
BstMAI	GTCTC	1 cut(s)	277
BstMBI	GATC	3 cut(s)	131, 568, 888
BstMWI	GCNNNNNNNGC	3 cut(s)	227, 236, 617
BstNI	CCWGG	1 cut(s)	588
BstNSI	RCATGY	2 cut(s)	314, 503
BstPAI	GACNNNNGTC	1 cut(s)	516
BstSCI	CCNGG	1 cut(s)	586
BstSFI	CTRYAG	2 cut(s)	196, 804
BstV1I	GCAGC	4 cut(s)	223, 245, 339, 607
BstV2I	GAAGAC	4 cut(s)	18, 365, 424, 843
BsuRI	GGCC	1 cut(s)	203
BtsCI	GGATG	3 cut(s)	55, 583, 798
BtsI	GCAGTG	1 cut(s)	167
BtsIMutI	CAGTG	1 cut(s)	167
BveI	ACCTGC	1 cut(s)	357
Cac8I	GCNNGC	4 cut(s)	312, 369, 501, 609
CfoI	GCGC	2 cut(s)	593, 658
Cfr13I	GGNCC	3 cut(s)	201, 832, 900
Csp6I	GTAC	3 cut(s)	524, 536, 557
CviAII	CATG	2 cut(s)	311, 500
CviQI	GTAC	3 cut(s)	524, 536, 557
DdeI	CTNAG	5 cut(s)	327, 532, 687, 885, 927
DpnI	GATC	3 cut(s)	133, 570, 890
DpnII	GATC	3 cut(s)	131, 568, 888
Ecl136II	GAGCTC	1 cut(s)	326
Eco24I	GRGCYC	1 cut(s)	328
Eco47I	GGWCC	2 cut(s)	832, 900
Eco53kI	GAGCTC	1 cut(s)	326
Eco57I	CTGAAG	2 cut(s)	377, 715
Eco88I	CYCGRG	1 cut(s)	779
EcoICRI	GAGCTC	1 cut(s)	326
EcoRII	CCWGG	1 cut(s)	586
EcoT22I	ATGCAT	1 cut(s)	583
EcoT38I	GRGCYC	1 cut(s)	328
FaeI	CATG	2 cut(s)	314, 503
FalI	AAGNNNNNCTT	2 cut(s)	355, 387
FaqI	GGGAC	1 cut(s)	132
FatI	CATG	2 cut(s)	310, 499
FauI	CCCGC	1 cut(s)	704
Fnu4HI	GCNGC	5 cut(s)	231, 234, 237, 353, 621
FokI	GGATG	3 cut(s)	42, 590, 805
FriOI	GRGCYC	1 cut(s)	328
Fsp4HI	GCNGC	5 cut(s)	231, 234, 237, 353, 621
FspBI	CTAG	4 cut(s)	240, 750, 842, 952
FspI	TGCGCA	1 cut(s)	657
GlaI	GCGC	2 cut(s)	592, 657
GluI	GCNGC	5 cut(s)	231, 234, 237, 353, 621
HaeIII	GGCC	1 cut(s)	203
HapII	CCGG	1 cut(s)	380
HhaI	GCGC	2 cut(s)	593, 658
Hin1II	CATG	2 cut(s)	314, 503
Hin6I	GCGC	2 cut(s)	591, 656
HinP1I	GCGC	2 cut(s)	591, 656
HincII	GTYRAC	2 cut(s)	171, 763
HindII	GTYRAC	2 cut(s)	171, 763
HindIII	AAGCTT	1 cut(s)	646
HinfI	GANTC	5 cut(s)	36, 141, 285, 809, 838
HpaII	CCGG	1 cut(s)	380
HphI	GGTGA	1 cut(s)	638
Hpy166II	GTNNAC	4 cut(s)	171, 415, 463, 763
Hpy188I	TCNGA	6 cut(s)	35, 136, 216, 271, 444, 678
Hpy188III	TCNNGA	9 cut(s)	145, 317, 548, 733, 779, 781, 835, 926, 937
Hpy8I	GTNNAC	4 cut(s)	171, 415, 463, 763
HpyAV	CCTTC	5 cut(s)	51, 69, 122, 502, 810
HpyCH4III	ACNGT	2 cut(s)	430, 528
HpyCH4V	TGCA	4 cut(s)	112, 581, 607, 861
HpyF10VI	GCNNNNNNNGC	3 cut(s)	227, 236, 617
HpyF3I	CTNAG	5 cut(s)	327, 532, 687, 885, 927
Hsp92II	CATG	2 cut(s)	314, 503
HspAI	GCGC	2 cut(s)	591, 656
Kzo9I	GATC	3 cut(s)	131, 568, 888
LmnI	GCTCC	3 cut(s)	256, 319, 323
Lsp1109I	GCAGC	4 cut(s)	223, 245, 339, 607
LweI	GCATC	2 cut(s)	568, 708
MaeI	CTAG	4 cut(s)	240, 750, 842, 952
MaeIII	GTNAC	1 cut(s)	626
MalI	GATC	3 cut(s)	133, 570, 890
MboI	GATC	3 cut(s)	131, 568, 888
MhlI	GDGCHC	1 cut(s)	328
MluCI	AATT	6 cut(s)	263, 387, 397, 542, 743, 856
MlyI	GAGTC	3 cut(s)	279, 803, 847
MmeI	TCCRAC	1 cut(s)	313
MnlI	CCTC	7 cut(s)	199, 376, 544, 592, 655, 813, 891
Mph1103I	ATGCAT	1 cut(s)	583
MroXI	GAANNNNTTC	1 cut(s)	479
MseI	TTAA	1 cut(s)	720
MslI	CAYNNNNRTG	1 cut(s)	468
MspA1I	CMGCKG	1 cut(s)	236
MspI	CCGG	1 cut(s)	380
MspR9I	CCNGG	1 cut(s)	588
MvaI	CCWGG	1 cut(s)	588
MwoI	GCNNNNNNNGC	3 cut(s)	227, 236, 617
NdeII	GATC	3 cut(s)	131, 568, 888
NlaIII	CATG	2 cut(s)	314, 503
NlaIV	GGNNCC	1 cut(s)	246
NmuCI	GTSAC	1 cut(s)	626
NsbI	TGCGCA	1 cut(s)	657
NsiI	ATGCAT	1 cut(s)	583
NspI	RCATGY	2 cut(s)	314, 503
PaeI	GCATGC	2 cut(s)	314, 503
PaeR7I	CTCGAG	1 cut(s)	779
PcsI	WCGNNNNNNNCGW	1 cut(s)	31
PdmI	GAANNNNTTC	1 cut(s)	479
PfeI	GAWTC	2 cut(s)	36, 141
PkrI	GCNGC	5 cut(s)	232, 235, 238, 354, 622
PleI	GAGTC	3 cut(s)	279, 803, 846
PpsI	GAGTC	3 cut(s)	279, 803, 846
PshAI	GACNNNNGTC	1 cut(s)	516
PsiI	TTATAA	1 cut(s)	489
Psp124BI	GAGCTC	1 cut(s)	328
Psp6I	CCWGG	1 cut(s)	586
PspGI	CCWGG	1 cut(s)	586
PspN4I	GGNNCC	1 cut(s)	246
PspPI	GGNCC	3 cut(s)	201, 832, 900
PvuII	CAGCTG	1 cut(s)	236
RsaI	GTAC	3 cut(s)	525, 537, 558
RsaNI	GTAC	3 cut(s)	524, 536, 557
RseI	CAYNNNNRTG	1 cut(s)	468
SacI	GAGCTC	1 cut(s)	328
SaqAI	TTAA	1 cut(s)	720
SatI	GCNGC	5 cut(s)	231, 234, 237, 353, 621
Sau3AI	GATC	3 cut(s)	131, 568, 888
Sau96I	GGNCC	3 cut(s)	201, 832, 900
ScaI	AGTACT	1 cut(s)	525
SchI	GAGTC	3 cut(s)	279, 803, 847
ScrFI	CCNGG	1 cut(s)	588
SduI	GDGCHC	1 cut(s)	328
SfaNI	GCATC	2 cut(s)	568, 708
SfcI	CTRYAG	2 cut(s)	196, 804
Sfr274I	CTCGAG	1 cut(s)	779
SinI	GGWCC	2 cut(s)	832, 900
SlaI	CTCGAG	1 cut(s)	779
SmiMI	CAYNNNNRTG	1 cut(s)	468
SmlI	CTYRAG	3 cut(s)	572, 643, 779
SmoI	CTYRAG	3 cut(s)	572, 643, 779
SphI	GCATGC	2 cut(s)	314, 503
Sse9I	AATT	6 cut(s)	263, 387, 397, 542, 743, 856
SsiI	CCGC	3 cut(s)	230, 697, 813
SspMI	CTAG	4 cut(s)	240, 750, 842, 952
SstI	GAGCTC	1 cut(s)	328
StyD4I	CCNGG	1 cut(s)	586
TaaI	ACNGT	2 cut(s)	430, 528
TaqI	TCGA	3 cut(s)	408, 780, 936
TasI	AATT	6 cut(s)	263, 387, 397, 542, 743, 856
TatI	WGTACW	2 cut(s)	523, 535
TauI	GCSGC	1 cut(s)	233
TfiI	GAWTC	2 cut(s)	36, 141
Tru1I	TTAA	1 cut(s)	720
Tru9I	TTAA	1 cut(s)	720
TscAI	CASTG	1 cut(s)	167
TseFI	GTSAC	1 cut(s)	626
TseI	GCWGC	4 cut(s)	233, 236, 352, 620
Tsp45I	GTSAC	1 cut(s)	626
TspDTI	ATGAA	4 cut(s)	17, 408, 438, 809
TspGWI	ACGGA	1 cut(s)	293
TspRI	CASTG	1 cut(s)	167
VpaK11BI	GGWCC	2 cut(s)	832, 900
XapI	RAATTY	3 cut(s)	263, 387, 542
XceI	RCATGY	2 cut(s)	314, 503
XcmI	CCANNNNNNNNNTGG	1 cut(s)	842
XhoI	CTCGAG	1 cut(s)	779
XmnI	GAANNNNTTC	1 cut(s)	479
XspI	CTAG	4 cut(s)	240, 750, 842, 952
ZrmI	AGTACT	1 cut(s)	525
Zsp2I	ATGCAT	1 cut(s)	583

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