Rh5BG489600

May be involved in both secretory and endocytic intracellular trafficking in the endosomal prevacuolar compartments

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5B
OG0018013
Physical Location & Seq
Reverse (-)
77919873 .. 77949568
29696 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5BG489600.1

Sequence Viewer

Length: 744 bp
ATGCAACAAATTCATCAGCTCTCGATCTTCAAAAACTTCTTCCGATTTTCGGCCCCAAATCTTTTTCCCAATCGCAGCCCCCAATCTTCTCCCATAATTCCACCAATGTCCTCGCCTTCCTCGATCCCAATGTCCTCCTCCTCCTCCTCGCAACAGTCCACACAGCCACCCTCATTTCCGCTGCCGCCGTTCCGATCCATCCTCACGCGCCTCTCCCGCTTCTCCCGCAACGCGCTCGTCAACCAACGCCCCTGGACCGAGCTCGTCGACCGCACCGCCTTCACCCGACCGTCCTCCTTCTCCGACGCGGCCTCGCGCGTGAGGAAAAACGCAGCCTACTTCCGCGTCAACTACCTGATCGTGCTCGCCGTCGTCCTCGCCTACTCGCTCCTCTCCCACCCCTTCACTCTCCTCACCCTCGTCGTCCTCGCCGCCGCGTGGATCTTCCTCTACTCGCACCGACAGTCGGATCAGCCGCTCGTGATCTTGGGCCGGACCTACTCCGACACGCAGGTGCTGTTTGGGCTGGGCCTGGCGACGCTGATCGCGATCTTGATGACGAGCGTGCTGTCGCTGCTCATAACGGCGCTGATGGTGGGGGTCGGGATCGTCTGTGCTCACGGCGCGTTTAGGGATCCTGAGGATCTGTTCTTGGATGAATCGCAGCCGTTGGGTTCTGGATTCGCTTCGATGTTCAGTGGGGCCGCTTCCTCTGCTGGCGCCAGCATGGTGTCACGTGTCTAG
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
PRA1

Protein Analysis

247

Amino Acids

26.96

Weight (kDa)

10.55

Isoelectric Point (pI)

53.4

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PRA1 PF03208 79 - 220 2e-47 PRA1 family protein
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
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Orthologous Genes (Group: OG0018013)

Species Orthologous Gene IDs
fragaria_vesca FvH4_3g39780
malus_domestica MD03G1056700.v1.1 MD11G1058500.v1.1
prunus_persica Prupe.6G048100_v2.0.a1
pyrus_communis pycom03g04510
rosa_chinensis RchiOBHm_Chr5g0071661
rosa_multiflora Rmu_sc0005745.1_g000036
rosa_roxburghii Rroxscaffold_1G00009510
rosa_rugosa Rorug05G0414100
rosa_samantha Rh5BG489600
rosa_wichuraiana Rw5G043670

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 1 cut(s) 502
Acc36I ACCTGC 1 cut(s) 502
AccB1I GGYRCC 1 cut(s) 719
AccBSI CCGCTC 1 cut(s) 478
AccI GTMKAC 1 cut(s) 267
AccII CGCG 9 cut(s) 208, 233, 308, 316, 318, 345, 437, 548, 626
AclWI GGATC 8 cut(s) 118, 189, 449, 477, 614, 629, 642, 651
AcsI RAATTY 1 cut(s) 9
AcvI CACGTG 1 cut(s) 737
AcyI GRCGYC 1 cut(s) 720
AfiI CCNNNNNNNGG 3 cut(s) 49, 438, 466
AflIII ACRYGT 1 cut(s) 736
AgsI TTSAA 1 cut(s) 31
AjnI CCWGG 2 cut(s) 251, 531
AleI CACNNNNGTG 1 cut(s) 512
AluBI AGCT 2 cut(s) 19, 262
AluI AGCT 2 cut(s) 19, 262
Alw21I GWGCWC 3 cut(s) 264, 366, 619
AlwI GGATC 8 cut(s) 118, 189, 449, 477, 614, 629, 642, 651
AlwNI CAGNNNCTG 1 cut(s) 517
AoxI GGCC 5 cut(s) 51, 309, 490, 529, 702
ApeKI GCWGC 5 cut(s) 75, 181, 332, 574, 664
ApoI RAATTY 1 cut(s) 9
AspLEI GCGC 6 cut(s) 210, 235, 318, 589, 626, 722
AspS9I GGNCC 6 cut(s) 52, 255, 490, 495, 529, 702
AsuHPI GGTGA 2 cut(s) 274, 406
AvaII GGWCC 2 cut(s) 255, 495
AxyI CCTNAGG 1 cut(s) 639
BamHI GGATCC 1 cut(s) 634
BanI GGYRCC 1 cut(s) 719
BanII GRGCYC 1 cut(s) 264
BauI CACGAG 1 cut(s) 479
BbrPI CACGTG 1 cut(s) 737
Bbv12I GWGCWC 3 cut(s) 264, 366, 619
BbvI GCAGC 5 cut(s) 87, 168, 344, 561, 676
BccI CCATC 2 cut(s) 206, 586
BceAI ACGGC 5 cut(s) 172, 353, 600, 637, 652
BcgI CGANNNNNNTGC 2 cut(s) 217, 251
BciT130I CCWGG 2 cut(s) 253, 533
BfaI CTAG 1 cut(s) 742
BfoI RGCGCY 2 cut(s) 590, 723
BfuAI ACCTGC 1 cut(s) 502
Bme1390I CCNGG 2 cut(s) 253, 533
Bme18I GGWCC 2 cut(s) 255, 495
BmgT120I GGNCC 6 cut(s) 52, 255, 490, 495, 529, 702
BmiI GGNNCC 4 cut(s) 54, 636, 703, 721
BmrFI CCNGG 2 cut(s) 253, 533
BsaAI YACGTR 1 cut(s) 737
BsaBI GATNNNNATC 1 cut(s) 548
BsaHI GRCGYC 1 cut(s) 720
BsaJI CCNNGG 1 cut(s) 251
Bsc4I CCNNNNNNNGG 3 cut(s) 49, 438, 466
Bse21I CCTNAGG 1 cut(s) 639
Bse8I GATNNNNATC 1 cut(s) 548
BseBI CCWGG 2 cut(s) 253, 533
BseDI CCNNGG 1 cut(s) 251
BseGI GGATG 2 cut(s) 198, 661
BseJI GATNNNNATC 1 cut(s) 548
BseLI CCNNNNNNNGG 3 cut(s) 49, 438, 466
BseMII CTCAG 1 cut(s) 630
BseRI GAGGAG 6 cut(s) 127, 130, 133, 136, 380, 401
BseXI GCAGC 5 cut(s) 87, 168, 344, 561, 676
BseYI CCCAGC 1 cut(s) 526
Bsh1236I CGCG 9 cut(s) 208, 233, 308, 316, 318, 345, 437, 548, 626
Bsh1285I CGRYCG 2 cut(s) 271, 290
BshFI GGCC 5 cut(s) 53, 311, 492, 531, 704
BshNI GGYRCC 1 cut(s) 719
BsiEI CGRYCG 2 cut(s) 271, 290
BsiHKAI GWGCWC 3 cut(s) 264, 366, 619
BsiSI CCGG 1 cut(s) 493
BslI CCNNNNNNNGG 3 cut(s) 49, 438, 466
BsnI GGCC 5 cut(s) 53, 311, 492, 531, 704
Bsp1286I GDGCHC 3 cut(s) 264, 366, 619
Bsp68I TCGCGA 1 cut(s) 548
BspANI GGCC 5 cut(s) 53, 311, 492, 531, 704
BspCNI CTCAG 1 cut(s) 631
BspFNI CGCG 9 cut(s) 208, 233, 308, 316, 318, 345, 437, 548, 626
BspLI GGNNCC 4 cut(s) 54, 636, 703, 721
BspMI ACCTGC 1 cut(s) 502
BspPI GGATC 8 cut(s) 118, 189, 449, 477, 614, 629, 642, 651
BspT107I GGYRCC 1 cut(s) 719
BsrBI CCGCTC 1 cut(s) 478
BssECI CCNNGG 1 cut(s) 251
BssNI GRCGYC 1 cut(s) 720
BssSI CACGAG 1 cut(s) 479
Bst2BI CACGAG 1 cut(s) 479
Bst2UI CCWGG 2 cut(s) 253, 533
Bst4CI ACNGT 3 cut(s) 156, 291, 465
BstACI GRCGYC 1 cut(s) 720
BstBAI YACGTR 1 cut(s) 737
BstC8I GCNNGC 4 cut(s) 366, 566, 718, 724
BstDEI CTNAG 1 cut(s) 639
BstF5I GGATG 2 cut(s) 198, 661
BstFNI CGCG 9 cut(s) 208, 233, 308, 316, 318, 345, 437, 548, 626
BstH2I RGCGCY 2 cut(s) 590, 723
BstHHI GCGC 6 cut(s) 210, 235, 318, 589, 626, 722
BstMCI CGRYCG 2 cut(s) 271, 290
BstMWI GCNNNNNNNGC 6 cut(s) 216, 225, 523, 574, 623, 713
BstNI CCWGG 2 cut(s) 253, 533
BstSCI CCNGG 2 cut(s) 251, 531
BstUI CGCG 9 cut(s) 208, 233, 308, 316, 318, 345, 437, 548, 626
BstV1I GCAGC 5 cut(s) 87, 168, 344, 561, 676
BstX2I RGATCY 3 cut(s) 441, 634, 643
BstYI RGATCY 3 cut(s) 441, 634, 643
Bsu36I CCTNAGG 1 cut(s) 639
BsuRI GGCC 5 cut(s) 53, 311, 492, 531, 704
BtsCI GGATG 2 cut(s) 198, 661
BtsIMutI CAGTG 1 cut(s) 703
BtuMI TCGCGA 1 cut(s) 548
BveI ACCTGC 1 cut(s) 502
Cac8I GCNNGC 4 cut(s) 366, 566, 718, 724
CaiI CAGNNNCTG 1 cut(s) 517
CfoI GCGC 6 cut(s) 210, 235, 318, 589, 626, 722
Cfr13I GGNCC 6 cut(s) 52, 255, 490, 495, 529, 702
CseI GACGC 3 cut(s) 314, 334, 547
CviAII CATG 1 cut(s) 727
DdeI CTNAG 1 cut(s) 639
DinI GGCGCC 1 cut(s) 721
Ecl136II GAGCTC 1 cut(s) 262
Eco24I GRGCYC 1 cut(s) 264
Eco47I GGWCC 2 cut(s) 255, 495
Eco53kI GAGCTC 1 cut(s) 262
Eco72I CACGTG 1 cut(s) 737
Eco81I CCTNAGG 1 cut(s) 639
EcoICRI GAGCTC 1 cut(s) 262
EcoRII CCWGG 2 cut(s) 251, 531
EcoT38I GRGCYC 1 cut(s) 264
EgeI GGCGCC 1 cut(s) 721
EheI GGCGCC 1 cut(s) 721
FaeI CATG 1 cut(s) 730
FaiI YATR 3 cut(s) 95, 581, 728
FatI CATG 1 cut(s) 726
FauI CCCGC 2 cut(s) 224, 233
FblI GTMKAC 1 cut(s) 267
FokI GGATG 2 cut(s) 185, 668
FriOI GRGCYC 1 cut(s) 264
FspBI CTAG 1 cut(s) 742
GlaI GCGC 6 cut(s) 209, 234, 317, 588, 625, 721
GsaI CCCAGC 1 cut(s) 530
HaeII RGCGCY 2 cut(s) 590, 723
HaeIII GGCC 5 cut(s) 53, 311, 492, 531, 704
HapII CCGG 1 cut(s) 493
HgaI GACGC 3 cut(s) 314, 334, 547
HhaI GCGC 6 cut(s) 210, 235, 318, 589, 626, 722
Hin1I GRCGYC 1 cut(s) 720
Hin1II CATG 1 cut(s) 730
Hin6I GCGC 6 cut(s) 208, 233, 316, 587, 624, 720
HinP1I GCGC 6 cut(s) 208, 233, 316, 587, 624, 720
HincII GTYRAC 3 cut(s) 241, 268, 349
HindII GTYRAC 3 cut(s) 241, 268, 349
HinfI GANTC 2 cut(s) 659, 681
HpaII CCGG 1 cut(s) 493
HphI GGTGA 2 cut(s) 274, 406
Hpy166II GTNNAC 4 cut(s) 159, 241, 268, 349
Hpy188I TCNGA 5 cut(s) 44, 194, 304, 469, 505
Hpy188III TCNNGA 7 cut(s) 22, 481, 547, 553, 604, 638, 678
Hpy8I GTNNAC 4 cut(s) 159, 241, 268, 349
Hpy99I CGWCG 5 cut(s) 269, 308, 374, 425, 541
HpyAV CCTTC 4 cut(s) 126, 289, 307, 412
HpyCH4III ACNGT 3 cut(s) 156, 291, 465
HpyCH4IV ACGT 1 cut(s) 736
HpyCH4V TGCA 1 cut(s) 4
HpyF10VI GCNNNNNNNGC 6 cut(s) 216, 225, 523, 574, 623, 713
HpyF3I CTNAG 1 cut(s) 639
HpySE526I ACGT 1 cut(s) 736
Hsp92I GRCGYC 1 cut(s) 720
Hsp92II CATG 1 cut(s) 730
HspAI GCGC 6 cut(s) 208, 233, 316, 587, 624, 720
KasI GGCGCC 1 cut(s) 719
LmnI GCTCC 1 cut(s) 393
Lsp1109I GCAGC 5 cut(s) 87, 168, 344, 561, 676
MaeI CTAG 1 cut(s) 742
MaeII ACGT 1 cut(s) 736
MaeIII GTNAC 1 cut(s) 732
MbiI CCGCTC 1 cut(s) 478
MboII GAAGA 4 cut(s) 19, 31, 78, 436
MflI RGATCY 3 cut(s) 441, 634, 643
MhlI GDGCHC 3 cut(s) 264, 366, 619
MluCI AATT 2 cut(s) 9, 96
Mly113I GGCGCC 1 cut(s) 720
MmeI TCCRAC 3 cut(s) 327, 447, 528
MslI CAYNNNNRTG 1 cut(s) 512
MspA1I CMGCKG 1 cut(s) 181
MspI CCGG 1 cut(s) 493
MspR9I CCNGG 2 cut(s) 253, 533
MvaI CCWGG 2 cut(s) 253, 533
MvnI CGCG 9 cut(s) 208, 233, 308, 316, 318, 345, 437, 548, 626
MwoI GCNNNNNNNGC 6 cut(s) 216, 225, 523, 574, 623, 713
NarI GGCGCC 1 cut(s) 720
NlaIII CATG 1 cut(s) 730
NlaIV GGNNCC 4 cut(s) 54, 636, 703, 721
NmuCI GTSAC 1 cut(s) 732
NruI TCGCGA 1 cut(s) 548
OliI CACNNNNGTG 1 cut(s) 512
PaqCI CACCTGC 1 cut(s) 502
PcsI WCGNNNNNNNCGW 3 cut(s) 119, 366, 545
PfeI GAWTC 2 cut(s) 659, 681
PluTI GGCGCC 1 cut(s) 723
PmaCI CACGTG 1 cut(s) 737
PmlI CACGTG 1 cut(s) 737
Ppu21I YACGTR 1 cut(s) 737
Psp124BI GAGCTC 1 cut(s) 264
Psp6I CCWGG 2 cut(s) 251, 531
PspCI CACGTG 1 cut(s) 737
PspFI CCCAGC 1 cut(s) 526
PspGI CCWGG 2 cut(s) 251, 531
PspN4I GGNNCC 4 cut(s) 54, 636, 703, 721
PspPI GGNCC 6 cut(s) 52, 255, 490, 495, 529, 702
PstNI CAGNNNCTG 1 cut(s) 517
PsuI RGATCY 3 cut(s) 441, 634, 643
RruI TCGCGA 1 cut(s) 548
RseI CAYNNNNRTG 1 cut(s) 512
SacI GAGCTC 1 cut(s) 264
SalI GTCGAC 1 cut(s) 266
Sau96I GGNCC 6 cut(s) 52, 255, 490, 495, 529, 702
ScrFI CCNGG 2 cut(s) 253, 533
SduI GDGCHC 3 cut(s) 264, 366, 619
SetI ASST 6 cut(s) 21, 264, 357, 500, 516, 739
SfoI GGCGCC 1 cut(s) 721
SinI GGWCC 2 cut(s) 255, 495
SmiMI CAYNNNNRTG 1 cut(s) 512
Sse9I AATT 2 cut(s) 9, 96
SspDI GGCGCC 1 cut(s) 719
SspMI CTAG 1 cut(s) 742
SstI GAGCTC 1 cut(s) 264
StyD4I CCNGG 2 cut(s) 251, 531
TaaI ACNGT 3 cut(s) 156, 291, 465
TaiI ACGT 1 cut(s) 739
TaqI TCGA 4 cut(s) 23, 122, 267, 689
TaqII GACCGA 1 cut(s) 272
TasI AATT 2 cut(s) 9, 96
TauI GCSGC 6 cut(s) 187, 311, 434, 437, 478, 707
TfiI GAWTC 2 cut(s) 659, 681
TscAI CASTG 1 cut(s) 703
TseFI GTSAC 1 cut(s) 732
TseI GCWGC 5 cut(s) 75, 181, 332, 574, 664
Tsp45I GTSAC 1 cut(s) 732
TspDTI ATGAA 1 cut(s) 672
TspRI CASTG 1 cut(s) 703
VpaK11BI GGWCC 2 cut(s) 255, 495
XapI RAATTY 1 cut(s) 9
XmiI GTMKAC 1 cut(s) 267
XspI CTAG 1 cut(s) 742
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.