Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6A

Orthogroup ID

OG0000235

Physical Location & Seq

Genomic Coordinates Forward (+)

15720569 .. 15723431

Gene Structure 2863 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6AG107100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1095 bp

ATGAATTTCATTATCTGTAATTGGTTTCTCCTTTCTTTTTGTTGTGTCTTGAAGAGATTCCCACCTAGATTCCTCCGGAAGCACATTGTGAACAAACTTTCTAAAAGGGCGACATTAAAGTTGAAGCGATCCCCAGAGTGGTCATGGAAGGTTGAAGTGAGAAAATCGGGAGGAGATGTGTATTTGAAAGATGGATGGCAGGAGTTTCTGAGAGATGCCTGCTTGGGTGACAAAGAGTTTTTAGTGTTCATATACAACGGAAAAATGCGTTTCAGCATAAAGGTTTACGACAAGAATGGGTGTGAGAGAATGGATTTCCCTCACATCAAAACACACCAACACACAACCTCATCTAGGAGTACTAAAAGGCCTGTTAGGAGACCAAGAAAATCGAGCACAGGCAATTCAGCTGATAAGCTCAAAGAGGTTAAAGAAGAGGAAGTAGATTGCAATAACACTACAGACAAATGCTCTTCTAAGAGTACTGAAATGCTTCGTGGTAGACCAACAAAAACTACTGAGGAGTATACCAAGAGGCGTCTCGGTAGACCAACAAAACCTACCTCTAAGAGTACTAAGAGGCCTCCTGTTAGAGCAACAAAAAAAACTTCTGAGAGTACTAAGAGGCCTCCTGTTACACCAGCAAAAACTACTTTTGAGAGTACTAAGAGGCCTCGTGGTAGACCAAGAAAATATCCTGTCACGTGTAAAGACTCGGGTAAGCACATTCCAAATTCTGAATTTGATGTACTCAGAGAGGTCAAAGAAGAGGAAGAAGATTACCAAGAATCTGGTGAACTGTTCAAATCCAAATTGCAATACTTTACATGCAAAATCAACAGGCTAAGTCAAGTGTACATGCCCAAACCGTTCTATGGGGAAAATCTTTCTTCAGGAAACTATGAAGTTATTTACCTGAAAAATTCTGAGGGAACAAAATGGTACAAAGTGAAGCTTTCCCGTTACCATAAGACGGCCTTCATGACTAAAGGGTGGGGTGCTTTTGCAGTTGCTAACCAAGTCAAGGTGGGCAGTCTGTGCCAATTTCAGTTCCTAAAGGAAAACAGAATTGTTGTTCACATATTGAACAATTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0003824 GO:0004518 GO:0004519 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0006139 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009451 GO:0009987 GO:0016070 GO:0016553 GO:0016554 GO:0016787 GO:0016788 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0044237 GO:0044238 GO:0044424 GO:0044464 GO:0046483 GO:0071704 GO:0090304 GO:0090305 GO:0097159 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PPR

Protein Analysis

364

Amino Acids

42.54

Weight (kDa)

9.96

Isoelectric Point (pI)

50.21

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
B3	PF02362	19 - 98	9.3e-13	B3 DNA binding domain
B3	PF02362	280 - 363	2.9e-11	B3 DNA binding 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: OG0000235)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_1g22700 FvH4_2g06920 FvH4_2g06920 FvH4_2g06960 FvH4_2g06960 FvH4_2g06960 FvH4_2g06960 FvH4_2g06970 FvH4_2g06970 FvH4_2g07230 FvH4_2g07231 FvH4_2g07231 FvH4_2g07240 FvH4_2g07290 FvH4_2g07290 FvH4_2g07290 FvH4_2g07290 FvH4_2g07290 FvH4_2g07290 FvH4_2g07290 FvH4_2g07290 FvH4_2g07290 FvH4_2g07300 FvH4_2g07300 FvH4_2g07300 FvH4_2g07300 FvH4_2g07300 FvH4_2g07300 FvH4_2g07300 FvH4_2g07300 FvH4_2g07300 FvH4_2g07300 FvH4_4g19990 FvH4_4g19990 FvH4_4g19990 FvH4_4g20070
malus_domestica	MD05G1072700.v1.1
prunus_persica	Prupe.8G113100_v2.0.a1
pyrus_communis	pycom05g06500 pycom10g06950
rosa_chinensis	RchiOBHm_Chr4g0425711 RchiOBHm_Chr6g0259241 RchiOBHm_Chr6g0259251 RchiOBHm_Chr6g0259321 RchiOBHm_Chr6g0259331 RchiOBHm_Chr6g0259781 RchiOBHm_Chr6g0259791 RchiOBHm_Chr6g0259811 RchiOBHm_Chr6g0259881 RchiOBHm_Chr6g0259931
rosa_laevigata	RLG00000007345 RLG00000014500 RLG00000014501 RLG00000014505 RLG00000014506 RLG00000014507 RLG00000014539 RLG00000014540 RLG00000014545 RLG00000014546
rosa_multiflora	Rmu_co8137334.1_g000001 Rmu_co8454279.1_g000001 Rmu_co8476373.1_g000001 Rmu_sc0001078.1_g000001 Rmu_sc0003958.1_g000011 Rmu_sc0009049.1_g000001 Rmu_sc0009049.1_g000009 Rmu_sc0010546.1_g000001 Rmu_sc0011974.1_g000002 Rmu_sc0011974.1_g000003 Rmu_sc0033846.1_g000001 Rmu_sc0036999.1_g000001 Rmu_ssc0000052.1_g000015
rosa_roxburghii	Rroxscaffold_5G00367690 Rroxscaffold_7G00206530 Rroxscaffold_7G00206540 Rroxscaffold_7G00206560 Rroxscaffold_7G00206570 Rroxscaffold_7G00207020 Rroxscaffold_7G00207030 Rroxscaffold_7G00207150 Rroxscaffold_7G00207160 Rroxscaffold_7G00207170 Rroxscaffold_7G00207270
rosa_rugosa	Rorug04G0205300 Rorug05G0586300 Rorug05G0586400 Rorug05G0586500 Rorug05G0586600 Rorug05G0586700 Rorug05G0587300 Rorug05G0587400 Rorug05G0587500 Rorug05G0587600 Rorug05G0590500 Rorug05G0590600 Rorug05G0591200 Rorug05G0591300 Rorug05G0591400 Rorug05G0591500
rosa_samantha	Rh4AG262200 Rh4BG268500 Rh4CG279700 Rh4DG264100 Rh6AG103100 Rh6AG103600 Rh6AG107100 Rh6AG107200 Rh6AG107700 Rh6BG095400 Rh6BG095500 Rh6BG095900 Rh6BG096000 Rh6BG096800 Rh6BG102600 Rh6BG102700 Rh6BG102800 Rh6BG103800 Rh6CG092300 Rh6CG092400 Rh6CG092800 Rh6CG092900 Rh6CG096200 Rh6CG096300 Rh6CG096800 Rh6CG097100 Rh6DG086300 Rh6DG086400 Rh6DG086700 Rh6DG086800 Rh6DG090000 Rh6DG090100 Rh6DG090500 Rh6DG090800
rosa_wichuraiana	Rw4G022670 Rw6G008900 Rw6G008940 Rw6G009250 Rw6G009280 Rw6G009330

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	4 cut(s)	502, 527, 547, 682
AccIII	TCCGGA	1 cut(s)	75
AclWI	GGATC	1 cut(s)	123
AcsI	RAATTY	4 cut(s)	4, 733, 740, 922
AcuI	CTGAAG	1 cut(s)	876
AcvI	CACGTG	1 cut(s)	705
AcyI	GRCGYC	1 cut(s)	538
AdeI	CACNNNGTG	1 cut(s)	88
AfaI	GTAC	8 cut(s)	361, 484, 574, 619, 664, 750, 857, 944
AfiI	CCNNNNNNNGG	5 cut(s)	138, 354, 875, 973, 1024
AflIII	ACRYGT	1 cut(s)	704
AgsI	TTSAA	6 cut(s)	52, 124, 155, 187, 805, 1087
AluBI	AGCT	3 cut(s)	410, 418, 955
AluI	AGCT	3 cut(s)	410, 418, 955
Alw21I	GWGCWC	1 cut(s)	398
Alw26I	GTCTC	2 cut(s)	373, 545
AlwI	GGATC	1 cut(s)	123
Ama87I	CYCGRG	1 cut(s)	715
Aor13HI	TCCGGA	1 cut(s)	75
AoxI	GGCC	5 cut(s)	368, 581, 626, 671, 975
ApoI	RAATTY	4 cut(s)	4, 733, 740, 922
Asp700I	GAANNNNTTC	2 cut(s)	56, 492
AsuHPI	GGTGA	2 cut(s)	239, 806
AvaI	CYCGRG	1 cut(s)	715
BauI	CACGAG	1 cut(s)	675
BbrPI	CACGTG	1 cut(s)	705
Bbv12I	GWGCWC	1 cut(s)	398
BccI	CCATC	2 cut(s)	185, 189
BceAI	ACGGC	1 cut(s)	990
BcoDI	GTCTC	2 cut(s)	373, 545
BfaI	CTAG	2 cut(s)	66, 354
BfmI	CTRYAG	1 cut(s)	459
BmcAI	AGTACT	5 cut(s)	361, 484, 574, 619, 664
BmeT110I	CYCGRG	1 cut(s)	715
BmsI	GCATC	1 cut(s)	205
BsaAI	YACGTR	1 cut(s)	705
BsaHI	GRCGYC	1 cut(s)	538
BsaI	GGTCTC	1 cut(s)	373
BsaWI	WCCGGW	1 cut(s)	75
BsaXI	ACNNNNNCTCC	2 cut(s)	162, 192
Bsc4I	CCNNNNNNNGG	5 cut(s)	138, 354, 875, 973, 1024
BseAI	TCCGGA	1 cut(s)	75
BseGI	GGATG	1 cut(s)	200
BseLI	CCNNNNNNNGG	5 cut(s)	138, 354, 875, 973, 1024
BseMII	CTCAG	5 cut(s)	200, 510, 603, 766, 918
BseRI	GAGGAG	2 cut(s)	186, 536
BshFI	GGCC	5 cut(s)	370, 583, 628, 673, 977
BsiHKAI	GWGCWC	1 cut(s)	398
BsiHKCI	CYCGRG	1 cut(s)	715
BsiSI	CCGG	1 cut(s)	76
BslI	CCNNNNNNNGG	5 cut(s)	138, 354, 875, 973, 1024
BsmAI	GTCTC	2 cut(s)	373, 545
BsmBI	CGTCTC	1 cut(s)	545
BsnI	GGCC	5 cut(s)	370, 583, 628, 673, 977
Bso31I	GGTCTC	1 cut(s)	373
BsoBI	CYCGRG	1 cut(s)	715
Bsp1286I	GDGCHC	1 cut(s)	398
Bsp13I	TCCGGA	1 cut(s)	75
Bsp1407I	TGTACA	1 cut(s)	855
Bsp143I	GATC	1 cut(s)	128
BspANI	GGCC	5 cut(s)	370, 583, 628, 673, 977
BspCNI	CTCAG	5 cut(s)	201, 511, 604, 765, 919
BspEI	TCCGGA	1 cut(s)	75
BspHI	TCATGA	1 cut(s)	981
BspPI	GGATC	1 cut(s)	123
BspQI	GCTCTTC	1 cut(s)	478
BspTNI	GGTCTC	1 cut(s)	373
BsrGI	TGTACA	1 cut(s)	855
BssMI	GATC	1 cut(s)	128
BssNAI	GTATAC	1 cut(s)	528
BssNI	GRCGYC	1 cut(s)	538
BssSI	CACGAG	1 cut(s)	675
Bst1107I	GTATAC	1 cut(s)	528
Bst2BI	CACGAG	1 cut(s)	675
Bst4CI	ACNGT	2 cut(s)	801, 870
Bst6I	CTCTTC	4 cut(s)	47, 429, 478, 762
BstACI	GRCGYC	1 cut(s)	538
BstAPI	GCANNNNNTGC	1 cut(s)	1038
BstAUI	TGTACA	1 cut(s)	855
BstBAI	YACGTR	1 cut(s)	705
BstC8I	GCNNGC	1 cut(s)	220
BstENI	CCTNNNNNAGG	1 cut(s)	352
BstF5I	GGATG	1 cut(s)	200
BstKTI	GATC	1 cut(s)	131
BstMAI	GTCTC	2 cut(s)	373, 545
BstMBI	GATC	1 cut(s)	128
BstMWI	GCNNNNNNNGC	1 cut(s)	1038
BstNSI	RCATGY	2 cut(s)	831, 862
BstSFI	CTRYAG	1 cut(s)	459
BstXI	CCANNNNNNTGG	1 cut(s)	791
BstZ17I	GTATAC	1 cut(s)	528
BsuRI	GGCC	5 cut(s)	370, 583, 628, 673, 977
BtsCI	GGATG	1 cut(s)	200
Cac8I	GCNNGC	1 cut(s)	220
CciI	TCATGA	1 cut(s)	981
CseI	GACGC	1 cut(s)	527
Csp6I	GTAC	8 cut(s)	360, 483, 573, 618, 663, 749, 856, 943
CviAII	CATG	4 cut(s)	144, 828, 859, 982
CviJI	RGCY	9 cut(s)	370, 410, 418, 583, 628, 673, 844, 955, 977
CviKI_1	RGCY	9 cut(s)	370, 410, 418, 583, 628, 673, 844, 955, 977
CviQI	GTAC	8 cut(s)	360, 483, 573, 618, 663, 749, 856, 943
DpnI	GATC	1 cut(s)	130
DpnII	GATC	1 cut(s)	128
DraIII	CACNNNGTG	1 cut(s)	88
Eam1104I	CTCTTC	4 cut(s)	47, 429, 478, 762
EarI	CTCTTC	4 cut(s)	47, 429, 478, 762
Eco147I	AGGCCT	4 cut(s)	370, 583, 628, 673
Eco31I	GGTCTC	1 cut(s)	373
Eco57I	CTGAAG	1 cut(s)	876
Eco72I	CACGTG	1 cut(s)	705
Eco88I	CYCGRG	1 cut(s)	715
EcoNI	CCTNNNNNAGG	1 cut(s)	352
Esp3I	CGTCTC	1 cut(s)	545
FaeI	CATG	4 cut(s)	147, 831, 862, 985
FalI	AAGNNNNNCTT	4 cut(s)	939, 971, 962, 994
FatI	CATG	4 cut(s)	143, 827, 858, 981
FblI	GTMKAC	4 cut(s)	502, 527, 547, 682
FokI	GGATG	1 cut(s)	207
FspBI	CTAG	2 cut(s)	66, 354
HaeIII	GGCC	5 cut(s)	370, 583, 628, 673, 977
HapII	CCGG	1 cut(s)	76
HgaI	GACGC	1 cut(s)	527
Hin1I	GRCGYC	1 cut(s)	538
Hin1II	CATG	4 cut(s)	147, 831, 862, 985
HindIII	AAGCTT	1 cut(s)	953
HinfI	GANTC	4 cut(s)	57, 69, 713, 788
HpaII	CCGG	1 cut(s)	76
HphI	GGTGA	2 cut(s)	239, 806
Hpy166II	GTNNAC	9 cut(s)	91, 286, 503, 528, 548, 683, 797, 856, 1078
Hpy188I	TCNGA	5 cut(s)	210, 613, 739, 755, 928
Hpy188III	TCNNGA	5 cut(s)	49, 76, 168, 894, 982
Hpy8I	GTNNAC	9 cut(s)	91, 286, 503, 528, 548, 683, 797, 856, 1078
HpyAV	CCTTC	2 cut(s)	142, 988
HpyCH4III	ACNGT	2 cut(s)	801, 870
HpyCH4IV	ACGT	1 cut(s)	704
HpyCH4V	TGCA	4 cut(s)	450, 817, 831, 1007
HpyF10VI	GCNNNNNNNGC	1 cut(s)	1038
HpySE526I	ACGT	1 cut(s)	704
Hsp92I	GRCGYC	1 cut(s)	538
Hsp92II	CATG	4 cut(s)	147, 831, 862, 985
Kpn2I	TCCGGA	1 cut(s)	75
Kzo9I	GATC	1 cut(s)	128
LguI	GCTCTTC	1 cut(s)	478
LweI	GCATC	1 cut(s)	205
MaeI	CTAG	2 cut(s)	66, 354
MaeII	ACGT	1 cut(s)	704
MaeIII	GTNAC	4 cut(s)	227, 634, 700, 962
MalI	GATC	1 cut(s)	130
MboI	GATC	1 cut(s)	128
MboII	GAAGA	7 cut(s)	64, 446, 465, 779, 785, 788, 882
MfeI	CAATTG	1 cut(s)	1090
MhlI	GDGCHC	1 cut(s)	398
MlyI	GAGTC	1 cut(s)	707
MroI	TCCGGA	1 cut(s)	75
MroXI	GAANNNNTTC	2 cut(s)	56, 492
MseI	TTAA	2 cut(s)	116, 429
MspA1I	CMGCKG	1 cut(s)	410
MspI	CCGG	1 cut(s)	76
MunI	CAATTG	1 cut(s)	1090
MwoI	GCNNNNNNNGC	1 cut(s)	1038
NdeII	GATC	1 cut(s)	128
NlaIII	CATG	4 cut(s)	147, 831, 862, 985
NmuCI	GTSAC	2 cut(s)	227, 700
NspI	RCATGY	2 cut(s)	831, 862
PagI	TCATGA	1 cut(s)	981
PceI	AGGCCT	4 cut(s)	370, 583, 628, 673
PciSI	GCTCTTC	1 cut(s)	478
PdmI	GAANNNNTTC	2 cut(s)	56, 492
PfeI	GAWTC	3 cut(s)	57, 69, 788
PleI	GAGTC	1 cut(s)	707
PmaCI	CACGTG	1 cut(s)	705
PmlI	CACGTG	1 cut(s)	705
PpsI	GAGTC	1 cut(s)	707
Ppu21I	YACGTR	1 cut(s)	705
PspCI	CACGTG	1 cut(s)	705
PvuII	CAGCTG	1 cut(s)	410
RsaI	GTAC	8 cut(s)	361, 484, 574, 619, 664, 750, 857, 944
RsaNI	GTAC	8 cut(s)	360, 483, 573, 618, 663, 749, 856, 943
SapI	GCTCTTC	1 cut(s)	478
SaqAI	TTAA	2 cut(s)	116, 429
Sau3AI	GATC	1 cut(s)	128
ScaI	AGTACT	5 cut(s)	361, 484, 574, 619, 664
SchI	GAGTC	1 cut(s)	707
SduI	GDGCHC	1 cut(s)	398
SfaNI	GCATC	1 cut(s)	205
SfcI	CTRYAG	1 cut(s)	459
SseBI	AGGCCT	4 cut(s)	370, 583, 628, 673
SspMI	CTAG	2 cut(s)	66, 354
StuI	AGGCCT	4 cut(s)	370, 583, 628, 673
TaaI	ACNGT	2 cut(s)	801, 870
TaiI	ACGT	1 cut(s)	707
TaqI	TCGA	1 cut(s)	392
TatI	WGTACW	7 cut(s)	359, 482, 572, 617, 662, 748, 855
TfiI	GAWTC	3 cut(s)	57, 69, 788
Tru1I	TTAA	2 cut(s)	116, 429
Tru9I	TTAA	2 cut(s)	116, 429
TseFI	GTSAC	2 cut(s)	227, 700
Tsp45I	GTSAC	2 cut(s)	227, 700
TspDTI	ATGAA	4 cut(s)	17, 238, 918, 970
TspGWI	ACGGA	1 cut(s)	273
XagI	CCTNNNNNAGG	1 cut(s)	352
XapI	RAATTY	4 cut(s)	4, 733, 740, 922
XceI	RCATGY	2 cut(s)	831, 862
XcmI	CCANNNNNNNNNTGG	1 cut(s)	141
XmiI	GTMKAC	4 cut(s)	502, 527, 547, 682
XmnI	GAANNNNTTC	2 cut(s)	56, 492
XspI	CTAG	2 cut(s)	66, 354
ZrmI	AGTACT	5 cut(s)	361, 484, 574, 619, 664

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