Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4C

Orthogroup ID

OG0004423

Physical Location & Seq

Genomic Coordinates Forward (+)

33936495 .. 33965637

Gene Structure 29143 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4CG154500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 936 bp

ATGCTCGAGGTTCTCTTTGAGGCTGGAAATTTTGTAAAAGATGAAGTATGGCACGCGGTTATTGTTGTGATAAGTAATTCACCTGATCTTCAGGGGTATATGGAAACTTTGGTTCCAGTAGCAGTTTGGTGCATTGGAGAATATGGTGACATGTTGGTAAATAATATTGGCATGCTTGATGTAGAGGATCCCATAACGCTATCTTCACGTTTCCCATCTTGTTCAGAGAGGATCAAAGAAATCGTAGTTCAGTACAAAGGAAGCCTTGTGCTTGAATTGCAGCAAAGATCCATTGAATTGAATTCTATTATTGCGAAGCATCAGAACATTAGATCTACACTGGTTGAGAGGATGCCAATTTTGGATTTGTTAGAGTGGGAGGAAAAGCAGAGTGGTTCTATACCAACTACTTCTGGTTCAACTCCTGCTCATGCTTCAATCAACATACCAAATGGAGTTGCCAAACCTTCTTCAGCTCCTCTTGTGGATTTACTTGATCTAAATTCAGATGATGTGCCAGCACCTAGCTCCTCTGGTGGTGATTCTTTTCATGGTCTTCTTGATATTGATTTGTCAGGAGCTCCTAAACAATCGGGTGTAAATCATTCTCCAAACAACGGCACTGATGCTGTAATGGATCTCTTGTCTACTGCTACCCCTACACAAAGCAGCTCAGATTTTATTTTTCAGGCAGCTGTTCCAAAGTTCCTGCAACTGCACTTAGAGCCAGCCAGCGGCAATACTCTTCGTGCAAGTGGTAATGAGTCCATCACACAAACTTTGAGAGTTACCGATTGCCAACATGGAAAGAAAAGTCTCGTCATGCGCATAAGGATAGCTTACAAGATGAACAACAAAGATGTCTTGGAGGAAGGACAAATCAACAATTTTCCGATCCCCAGGATTTATGAAGTGGAGCAGTTTTCTAGATGGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005794 GO:0005798 GO:0006810 GO:0008150 GO:0012505 GO:0012506 GO:0012510 GO:0016020 GO:0016192 GO:0030117 GO:0030118 GO:0030119 GO:0030120 GO:0030121 GO:0030125 GO:0030130 GO:0030131 GO:0030133 GO:0030135 GO:0030136 GO:0030140 GO:0030658 GO:0030659 GO:0030660 GO:0030662 GO:0030665 GO:0031090 GO:0031410 GO:0031982 GO:0032991 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044422 GO:0044424 GO:0044425 GO:0044431 GO:0044433 GO:0044444 GO:0044446 GO:0044464 GO:0048475 GO:0051179 GO:0051234 GO:0097708 GO:0098588 GO:0098796 GO:0098805

KEGG Pathways

Metabolic & Signaling

ko04142 map04142

Pfam Domains

Protein Families

Adaptin_N Alpha_adaptinC2

Protein Analysis

311

Amino Acids

34.08

Weight (kDa)

4.83

Isoelectric Point (pI)

51.07

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Alpha_adaptinC2	PF02883	204 - 298	8.7e-20	Adaptin C-terminal 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)

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Publication-ready

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Orthologous Genes (Group: OG0004423)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G23900 AT1G23900 AT1G23900 AT1G60070 AT1G60070
fragaria_vesca	FvH4_4g34830 FvH4_4g34830 FvH4_4g34830 FvH4_4g34830 FvH4_4g34830 FvH4_4g34830 FvH4_4g34830 FvH4_4g34830 FvH4_4g34830
malus_domestica	MD13G1089300.v1.1 MD16G1089500.v1.1
prunus_persica	Prupe.1G256500_v2.0.a1
pyrus_communis	pycom13g07770 pycom16g07660
rosa_chinensis	RchiOBHm_Chr4g0444171
rosa_laevigata	RLG00000005850
rosa_multiflora	Rmu_sc0034408.1_g000001 Rmu_ssc0000462.1_g000001
rosa_roxburghii	Rroxscaffold_5G00384760
rosa_rugosa	Rorug04G0350700 Rorug04G0350700
rosa_samantha	Rh4AG411400 Rh4BG422800 Rh4CG154500 Rh4CG437100 Rh4DG418100
rosa_wichuraiana	Rw4G035340

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc16I	TGCGCA	1 cut(s)	827
AccI	GTMKAC	1 cut(s)	647
AccII	CGCG	1 cut(s)	56
AciI	CCGC	2 cut(s)	56, 735
AclWI	GGATC	6 cut(s)	182, 195, 239, 282, 645, 889
AcsI	RAATTY	3 cut(s)	28, 301, 502
AcuI	CTGAAG	2 cut(s)	74, 456
AfaI	GTAC	1 cut(s)	254
AfiI	CCNNNNNNNGG	2 cut(s)	617, 734
AflIII	ACRYGT	1 cut(s)	150
AgsI	TTSAA	5 cut(s)	275, 296, 301, 420, 438
AjnI	CCWGG	1 cut(s)	899
AluBI	AGCT	6 cut(s)	476, 528, 581, 672, 695, 839
AluI	AGCT	6 cut(s)	476, 528, 581, 672, 695, 839
Alw21I	GWGCWC	1 cut(s)	583
Alw26I	GTCTC	1 cut(s)	821
AlwI	GGATC	6 cut(s)	182, 195, 239, 282, 645, 889
Ama87I	CYCGRG	1 cut(s)	5
ApeKI	GCWGC	3 cut(s)	280, 669, 692
ApoI	RAATTY	3 cut(s)	28, 301, 502
AspLEI	GCGC	1 cut(s)	828
AsuHPI	GGTGA	3 cut(s)	72, 158, 551
AvaI	CYCGRG	1 cut(s)	5
BamHI	GGATCC	1 cut(s)	187
BanII	GRGCYC	1 cut(s)	583
BbsI	GAAGAC	1 cut(s)	548
Bbv12I	GWGCWC	1 cut(s)	583
BbvI	GCAGC	3 cut(s)	292, 681, 704
BccI	CCATC	3 cut(s)	223, 776, 924
BceAI	ACGGC	1 cut(s)	634
BciT130I	CCWGG	1 cut(s)	901
BcoDI	GTCTC	1 cut(s)	821
BfaI	CTAG	2 cut(s)	525, 927
BglII	AGATCT	1 cut(s)	332
BisI	GCNGC	4 cut(s)	281, 670, 693, 736
BlsI	GCNGC	4 cut(s)	282, 671, 694, 737
Bme1390I	CCNGG	1 cut(s)	901
BmeT110I	CYCGRG	1 cut(s)	5
BmiI	GGNNCC	2 cut(s)	114, 189
BmrFI	CCNGG	1 cut(s)	901
BmsI	GCATC	3 cut(s)	328, 342, 616
BpiI	GAAGAC	1 cut(s)	548
BsaJI	CCNNGG	1 cut(s)	899
Bsc4I	CCNNNNNNNGG	2 cut(s)	617, 734
Bse1I	ACTGG	2 cut(s)	116, 345
BseBI	CCWGG	1 cut(s)	901
BseDI	CCNNGG	1 cut(s)	899
BseGI	GGATG	1 cut(s)	357
BseLI	CCNNNNNNNGG	2 cut(s)	617, 734
BseMII	CTCAG	1 cut(s)	687
BseNI	ACTGG	2 cut(s)	116, 345
BseRI	GAGGAG	2 cut(s)	468, 520
BseXI	GCAGC	3 cut(s)	292, 681, 704
BsgI	GTGCAG	1 cut(s)	701
Bsh1236I	CGCG	1 cut(s)	56
BsiHKAI	GWGCWC	1 cut(s)	583
BsiHKCI	CYCGRG	1 cut(s)	5
BslI	CCNNNNNNNGG	2 cut(s)	617, 734
BsmAI	GTCTC	1 cut(s)	821
BsoBI	CYCGRG	1 cut(s)	5
Bsp1286I	GDGCHC	1 cut(s)	583
Bsp143I	GATC	8 cut(s)	85, 187, 231, 287, 332, 496, 637, 894
BspACI	CCGC	2 cut(s)	56, 735
BspCNI	CTCAG	1 cut(s)	686
BspFNI	CGCG	1 cut(s)	56
BspLI	GGNNCC	2 cut(s)	114, 189
BspPI	GGATC	6 cut(s)	182, 195, 239, 282, 645, 889
BsrI	ACTGG	2 cut(s)	116, 345
BssECI	CCNNGG	1 cut(s)	899
BssMI	GATC	8 cut(s)	85, 187, 231, 287, 332, 496, 637, 894
Bst2UI	CCWGG	1 cut(s)	901
Bst6I	CTCTTC	1 cut(s)	750
BstC8I	GCNNGC	5 cut(s)	54, 173, 519, 729, 733
BstDEI	CTNAG	2 cut(s)	673, 721
BstF5I	GGATG	1 cut(s)	357
BstFNI	CGCG	1 cut(s)	56
BstHHI	GCGC	1 cut(s)	828
BstKTI	GATC	8 cut(s)	88, 190, 234, 290, 335, 499, 640, 897
BstMAI	GTCTC	1 cut(s)	821
BstMBI	GATC	8 cut(s)	85, 187, 231, 287, 332, 496, 637, 894
BstMWI	GCNNNNNNNGC	2 cut(s)	277, 724
BstNI	CCWGG	1 cut(s)	901
BstNSI	RCATGY	2 cut(s)	154, 175
BstSCI	CCNGG	1 cut(s)	899
BstUI	CGCG	1 cut(s)	56
BstV1I	GCAGC	3 cut(s)	292, 681, 704
BstV2I	GAAGAC	1 cut(s)	548
BstX2I	RGATCY	4 cut(s)	187, 287, 332, 637
BstYI	RGATCY	4 cut(s)	187, 287, 332, 637
BtsCI	GGATG	1 cut(s)	357
BtsIMutI	CAGTG	2 cut(s)	338, 621
Cac8I	GCNNGC	5 cut(s)	54, 173, 519, 729, 733
CfoI	GCGC	1 cut(s)	828
Csp6I	GTAC	1 cut(s)	253
CviAII	CATG	6 cut(s)	151, 172, 431, 551, 803, 823
CviQI	GTAC	1 cut(s)	253
DdeI	CTNAG	2 cut(s)	673, 721
DpnI	GATC	8 cut(s)	87, 189, 233, 289, 334, 498, 639, 896
DpnII	GATC	8 cut(s)	85, 187, 231, 287, 332, 496, 637, 894
Eam1104I	CTCTTC	1 cut(s)	750
EarI	CTCTTC	1 cut(s)	750
Ecl136II	GAGCTC	1 cut(s)	581
Eco24I	GRGCYC	1 cut(s)	583
Eco53kI	GAGCTC	1 cut(s)	581
Eco57I	CTGAAG	2 cut(s)	74, 456
Eco88I	CYCGRG	1 cut(s)	5
EcoICRI	GAGCTC	1 cut(s)	581
EcoRI	GAATTC	1 cut(s)	301
EcoRII	CCWGG	1 cut(s)	899
EcoT38I	GRGCYC	1 cut(s)	583
FaeI	CATG	6 cut(s)	154, 175, 434, 554, 806, 826
FalI	AAGNNNNNCTT	4 cut(s)	249, 281, 823, 855
FatI	CATG	6 cut(s)	150, 171, 430, 550, 802, 822
FblI	GTMKAC	1 cut(s)	647
Fnu4HI	GCNGC	4 cut(s)	281, 670, 693, 736
FokI	GGATG	1 cut(s)	364
FriOI	GRGCYC	1 cut(s)	583
Fsp4HI	GCNGC	4 cut(s)	281, 670, 693, 736
FspAI	RTGCGCAY	1 cut(s)	827
FspBI	CTAG	2 cut(s)	525, 927
FspI	TGCGCA	1 cut(s)	827
GlaI	GCGC	1 cut(s)	827
GluI	GCNGC	4 cut(s)	281, 670, 693, 736
HhaI	GCGC	1 cut(s)	828
Hin1II	CATG	6 cut(s)	154, 175, 434, 554, 806, 826
Hin6I	GCGC	1 cut(s)	826
HinP1I	GCGC	1 cut(s)	826
HinfI	GANTC	2 cut(s)	542, 764
HphI	GGTGA	3 cut(s)	72, 158, 551
Hpy166II	GTNNAC	1 cut(s)	648
Hpy188I	TCNGA	5 cut(s)	226, 324, 508, 676, 894
Hpy188III	TCNNGA	3 cut(s)	560, 576, 927
Hpy8I	GTNNAC	1 cut(s)	648
HpyAV	CCTTC	2 cut(s)	477, 866
HpyCH4IV	ACGT	1 cut(s)	208
HpyCH4V	TGCA	5 cut(s)	132, 280, 712, 718, 752
HpyF10VI	GCNNNNNNNGC	2 cut(s)	277, 724
HpyF3I	CTNAG	2 cut(s)	673, 721
HpySE526I	ACGT	1 cut(s)	208
Hsp92II	CATG	6 cut(s)	154, 175, 434, 554, 806, 826
HspAI	GCGC	1 cut(s)	826
Kzo9I	GATC	8 cut(s)	85, 187, 231, 287, 332, 496, 637, 894
LmnI	GCTCC	5 cut(s)	481, 533, 578, 586, 916
Lsp1109I	GCAGC	3 cut(s)	292, 681, 704
LweI	GCATC	3 cut(s)	328, 342, 616
MaeI	CTAG	2 cut(s)	525, 927
MaeII	ACGT	1 cut(s)	208
MaeIII	GTNAC	2 cut(s)	146, 787
MalI	GATC	8 cut(s)	87, 189, 233, 289, 334, 498, 639, 896
MboI	GATC	8 cut(s)	85, 187, 231, 287, 332, 496, 637, 894
MboII	GAAGA	5 cut(s)	80, 195, 462, 548, 737
MflI	RGATCY	4 cut(s)	187, 287, 332, 637
MhlI	GDGCHC	1 cut(s)	583
MluCI	AATT	8 cut(s)	28, 76, 275, 296, 301, 357, 502, 886
MlyI	GAGTC	1 cut(s)	773
MnlI	CCTC	8 cut(s)	13, 178, 222, 342, 373, 489, 541, 862
MspA1I	CMGCKG	2 cut(s)	695, 735
MspR9I	CCNGG	1 cut(s)	901
MvaI	CCWGG	1 cut(s)	901
MvnI	CGCG	1 cut(s)	56
MwoI	GCNNNNNNNGC	2 cut(s)	277, 724
NdeII	GATC	8 cut(s)	85, 187, 231, 287, 332, 496, 637, 894
NlaIII	CATG	6 cut(s)	154, 175, 434, 554, 806, 826
NlaIV	GGNNCC	2 cut(s)	114, 189
NmuCI	GTSAC	1 cut(s)	146
NsbI	TGCGCA	1 cut(s)	827
NspI	RCATGY	2 cut(s)	154, 175
PaeI	GCATGC	1 cut(s)	175
PaeR7I	CTCGAG	1 cut(s)	5
PciI	ACATGT	1 cut(s)	150
PfeI	GAWTC	1 cut(s)	542
PkrI	GCNGC	4 cut(s)	282, 671, 694, 737
PleI	GAGTC	1 cut(s)	772
PpsI	GAGTC	1 cut(s)	772
PscI	ACATGT	1 cut(s)	150
Psp124BI	GAGCTC	1 cut(s)	583
Psp6I	CCWGG	1 cut(s)	899
PspGI	CCWGG	1 cut(s)	899
PspN4I	GGNNCC	2 cut(s)	114, 189
PspXI	VCTCGAGB	1 cut(s)	5
PsuI	RGATCY	4 cut(s)	187, 287, 332, 637
PvuII	CAGCTG	1 cut(s)	695
RsaI	GTAC	1 cut(s)	254
RsaNI	GTAC	1 cut(s)	253
SacI	GAGCTC	1 cut(s)	583
SatI	GCNGC	4 cut(s)	281, 670, 693, 736
Sau3AI	GATC	8 cut(s)	85, 187, 231, 287, 332, 496, 637, 894
SchI	GAGTC	1 cut(s)	773
ScrFI	CCNGG	1 cut(s)	901
SduI	GDGCHC	1 cut(s)	583
SfaNI	GCATC	3 cut(s)	328, 342, 616
Sfr274I	CTCGAG	1 cut(s)	5
SlaI	CTCGAG	1 cut(s)	5
SmlI	CTYRAG	1 cut(s)	5
SmoI	CTYRAG	1 cut(s)	5
SphI	GCATGC	1 cut(s)	175
Sse9I	AATT	8 cut(s)	28, 76, 275, 296, 301, 357, 502, 886
SsiI	CCGC	2 cut(s)	56, 735
SspI	AATATT	1 cut(s)	166
SspMI	CTAG	2 cut(s)	525, 927
SstI	GAGCTC	1 cut(s)	583
StyD4I	CCNGG	1 cut(s)	899
TaiI	ACGT	1 cut(s)	211
TaqI	TCGA	1 cut(s)	6
TasI	AATT	8 cut(s)	28, 76, 275, 296, 301, 357, 502, 886
TatI	WGTACW	1 cut(s)	252
TauI	GCSGC	1 cut(s)	738
TfiI	GAWTC	1 cut(s)	542
TscAI	CASTG	2 cut(s)	345, 628
TseFI	GTSAC	1 cut(s)	146
TseI	GCWGC	3 cut(s)	280, 669, 692
Tsp45I	GTSAC	1 cut(s)	146
TspDTI	ATGAA	4 cut(s)	57, 539, 863, 924
TspRI	CASTG	2 cut(s)	345, 628
XapI	RAATTY	3 cut(s)	28, 301, 502
XbaI	TCTAGA	1 cut(s)	926
XceI	RCATGY	2 cut(s)	154, 175
XcmI	CCANNNNNNNNNTGG	1 cut(s)	123
XhoI	CTCGAG	1 cut(s)	5
XmiI	GTMKAC	1 cut(s)	647
XspI	CTAG	2 cut(s)	525, 927

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