Rroxscaffold_5G00372080

HORMA domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000005
OG0011256
Physical Location & Seq
Reverse (-)
53543981 .. 53546278
2298 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_5G00372080.1

Sequence Viewer

Length: 711 bp
ATGGCCACCATCGAGAAGAAGGATTTAGAGGGCAAGGTTGGGAACGAGAAGGCGCTGAAGCACCTAGGGTTTGTGAGGATCGCGGCGATTCAGACGCTGGTGTGCGTTTCGAATCTGTACGAGTACGCGAAGCAGAACTCTGGGCCTCTGAGATCGACTGTTGGGACTGTGGAGGGTGCTGTCACCACCGTCGTTGGTCCAGTCTATGAGAAGTTCAAGGGCGTGCCTGATGATCTTCTTGCTTTTCTTGACACCAAGGTAGATGAAGTCACGGGCCAGTTTAACAAGCATGCTCCTCCTTTGGCTAAGCGGGTTGCAAGCCAAGGTCACAGTCTGATCCAGACGACTTTGGAGAAGGGCCAAAAATTTGTGAAGGAGGCTCAAACTGGGGGTCCTCGCTCAGCCATTCATTATGCAGCTACAGAATCTAAGCAGCTTGTATTTAACCAATCTGTGAAGCTTTGGGTTGTACTTGACCAGTACCATCCAATCCACAAAGTGGGAGAGAAGACTGCACCAACAGCTGCTCACTTGTCTGAGAAATACAACCACACCATAAGGGACTTGACCATGAAGGGATATACCATCTTCGGTTATTTGCCCTTGGTTCCGGTTGATGAAATCTCCAAAGCAGTTAAGCAGGGTAAGGCTGGGAAGAAGGGAGATGCAGCTGTGCATGTTGAGCATAAATCTGATTCTGATTCCGACTGA
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
HORMA NIF REF

Protein Analysis

236

Amino Acids

25.72

Weight (kDa)

9.06

Isoelectric Point (pI)

28.4

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
REF PF05755 15 - 214 3.9e-80 Rubber elongation factor protein (REF)
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: OG0011256)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G67360 AT1G67360
fragaria_vesca FvH4_4g23790
malus_domestica MD01G1161800.v1.1 MD08G1165600.v1.1 MD13G1118800.v1.1 MD16G1119000.v1.1
prunus_persica Prupe.1G226000_v2.0.a1
pyrus_communis pycom13g10370 pycom16g10190
rosa_chinensis RchiOBHm_Chr4g0430281
rosa_laevigata RLG00000006988
rosa_multiflora Rmu_sc0001089.1_g000026
rosa_roxburghii Rroxscaffold_5G00372080
rosa_rugosa Rorug04G0242400
rosa_samantha Rh4AG298800 Rh4BG305400 Rh4CG320900 Rh4DG302700
rosa_wichuraiana Rw4G025910

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB7I CCANNNNNTGG 1 cut(s) 499
AccII CGCG 2 cut(s) 83, 128
AciI CCGC 2 cut(s) 83, 310
AclWI GGATC 2 cut(s) 86, 331
AcoI YGGCCR 1 cut(s) 3
AcsI RAATTY 1 cut(s) 365
AcuI CTGAAG 1 cut(s) 77
AdeI CACNNNGTG 1 cut(s) 499
AfaI GTAC 4 cut(s) 119, 125, 471, 482
AfiI CCNNNNNNNGG 1 cut(s) 499
AgsI TTSAA 1 cut(s) 217
AluBI AGCT 5 cut(s) 419, 436, 460, 524, 671
AluI AGCT 5 cut(s) 419, 436, 460, 524, 671
AlwI GGATC 2 cut(s) 86, 331
AlwNI CAGNNNCTG 1 cut(s) 97
AoxI GGCC 4 cut(s) 3, 143, 274, 358
ApeKI GCWGC 4 cut(s) 416, 433, 524, 668
ApoI RAATTY 1 cut(s) 365
ArsI GACNNNNNNTTYG 2 cut(s) 376, 408
AspA2I CCTAGG 1 cut(s) 64
AspLEI GCGC 1 cut(s) 55
AspS9I GGNCC 5 cut(s) 143, 197, 274, 358, 392
AsuHPI GGTGA 1 cut(s) 175
AsuII TTCGAA 1 cut(s) 110
AvaII GGWCC 2 cut(s) 197, 392
AvrII CCTAGG 1 cut(s) 64
BalI TGGCCA 1 cut(s) 5
BbsI GAAGAC 1 cut(s) 515
BbvI GCAGC 4 cut(s) 428, 445, 511, 680
BccI CCATC 3 cut(s) 17, 492, 593
BfaI CTAG 1 cut(s) 65
BfmI CTRYAG 1 cut(s) 420
BfoI RGCGCY 1 cut(s) 56
BisI GCNGC 5 cut(s) 84, 417, 434, 525, 669
BlnI CCTAGG 1 cut(s) 64
BlpI GCTNAGC 2 cut(s) 306, 400
BlsI GCNGC 5 cut(s) 85, 418, 435, 526, 670
Bme18I GGWCC 2 cut(s) 197, 392
BmgT120I GGNCC 5 cut(s) 143, 197, 274, 358, 392
BmiI GGNNCC 2 cut(s) 393, 609
BmrI ACTGGG 1 cut(s) 396
BmsI GCATC 1 cut(s) 655
BmuI ACTGGG 1 cut(s) 396
BpiI GAAGAC 1 cut(s) 515
Bpu1102I GCTNAGC 2 cut(s) 306, 400
Bpu14I TTCGAA 1 cut(s) 110
BsaJI CCNNGG 4 cut(s) 64, 255, 322, 603
BsaWI WCCGGW 1 cut(s) 610
Bsc4I CCNNNNNNNGG 1 cut(s) 499
Bse1I ACTGG 4 cut(s) 200, 277, 391, 478
BseDI CCNNGG 4 cut(s) 64, 255, 322, 603
BseGI GGATG 1 cut(s) 484
BseLI CCNNNNNNNGG 1 cut(s) 499
BseMII CTCAG 3 cut(s) 140, 414, 528
BseNI ACTGG 4 cut(s) 200, 277, 391, 478
BseRI GAGGAG 1 cut(s) 285
BseXI GCAGC 4 cut(s) 428, 445, 511, 680
BseYI CCCAGC 1 cut(s) 650
BsgI GTGCAG 1 cut(s) 498
Bsh1236I CGCG 2 cut(s) 83, 128
BshFI GGCC 4 cut(s) 5, 145, 276, 360
BsiSI CCGG 1 cut(s) 611
BslFI GGGAC 2 cut(s) 178, 575
BslI CCNNNNNNNGG 1 cut(s) 499
BsmFI GGGAC 2 cut(s) 178, 575
BsnI GGCC 4 cut(s) 5, 145, 276, 360
Bsp119I TTCGAA 1 cut(s) 110
Bsp143I GATC 4 cut(s) 78, 152, 232, 336
Bsp1720I GCTNAGC 2 cut(s) 306, 400
BspACI CCGC 2 cut(s) 83, 310
BspANI GGCC 4 cut(s) 5, 145, 276, 360
BspCNI CTCAG 3 cut(s) 141, 413, 529
BspFNI CGCG 2 cut(s) 83, 128
BspLI GGNNCC 2 cut(s) 393, 609
BspPI GGATC 2 cut(s) 86, 331
BspT104I TTCGAA 1 cut(s) 110
BsrI ACTGG 4 cut(s) 200, 277, 391, 478
BssECI CCNNGG 4 cut(s) 64, 255, 322, 603
BssMI GATC 4 cut(s) 78, 152, 232, 336
BssT1I CCWWGG 4 cut(s) 64, 255, 322, 603
Bst4CI ACNGT 4 cut(s) 160, 169, 190, 332
BstBI TTCGAA 1 cut(s) 110
BstC8I GCNNGC 3 cut(s) 224, 291, 319
BstDEI CTNAG 5 cut(s) 149, 306, 400, 429, 537
BstF5I GGATG 1 cut(s) 484
BstFNI CGCG 2 cut(s) 83, 128
BstH2I RGCGCY 1 cut(s) 56
BstHHI GCGC 1 cut(s) 55
BstKTI GATC 4 cut(s) 81, 155, 235, 339
BstMBI GATC 4 cut(s) 78, 152, 232, 336
BstMWI GCNNNNNNNGC 2 cut(s) 521, 682
BstNSI RCATGY 2 cut(s) 293, 680
BstSFI CTRYAG 1 cut(s) 420
BstUI CGCG 2 cut(s) 83, 128
BstV1I GCAGC 4 cut(s) 428, 445, 511, 680
BstV2I GAAGAC 1 cut(s) 515
BsuRI GGCC 4 cut(s) 5, 145, 276, 360
BtsCI GGATG 1 cut(s) 484
Cac8I GCNNGC 3 cut(s) 224, 291, 319
CaiI CAGNNNCTG 1 cut(s) 97
CfoI GCGC 1 cut(s) 55
Cfr13I GGNCC 5 cut(s) 143, 197, 274, 358, 392
CseI GACGC 1 cut(s) 103
Csp6I GTAC 4 cut(s) 118, 124, 470, 481
CspCI CAANNNNNGTGG 2 cut(s) 175, 210
CviAII CATG 3 cut(s) 290, 571, 677
CviQI GTAC 4 cut(s) 118, 124, 470, 481
DdeI CTNAG 5 cut(s) 149, 306, 400, 429, 537
DpnI GATC 4 cut(s) 80, 154, 234, 338
DpnII GATC 4 cut(s) 78, 152, 232, 336
DraIII CACNNNGTG 1 cut(s) 499
EaeI YGGCCR 1 cut(s) 3
Eco130I CCWWGG 4 cut(s) 64, 255, 322, 603
Eco47I GGWCC 2 cut(s) 197, 392
Eco57I CTGAAG 1 cut(s) 77
EcoO109I RGGNCCY 1 cut(s) 392
EcoT14I CCWWGG 4 cut(s) 64, 255, 322, 603
ErhI CCWWGG 4 cut(s) 64, 255, 322, 603
FaeI CATG 3 cut(s) 293, 574, 680
FaiI YATR 8 cut(s) 207, 291, 414, 557, 572, 582, 678, 687
FaqI GGGAC 2 cut(s) 178, 575
FatI CATG 3 cut(s) 289, 570, 676
FauI CCCGC 1 cut(s) 303
Fnu4HI GCNGC 5 cut(s) 84, 417, 434, 525, 669
FokI GGATG 1 cut(s) 471
Fsp4HI GCNGC 5 cut(s) 84, 417, 434, 525, 669
FspBI CTAG 1 cut(s) 65
GlaI GCGC 1 cut(s) 54
GluI GCNGC 5 cut(s) 84, 417, 434, 525, 669
GsaI CCCAGC 1 cut(s) 654
HaeII RGCGCY 1 cut(s) 56
HaeIII GGCC 4 cut(s) 5, 145, 276, 360
HapII CCGG 1 cut(s) 611
HgaI GACGC 1 cut(s) 103
HhaI GCGC 1 cut(s) 55
Hin1II CATG 3 cut(s) 293, 574, 680
Hin6I GCGC 1 cut(s) 53
HinP1I GCGC 1 cut(s) 53
HindIII AAGCTT 1 cut(s) 458
HinfI GANTC 5 cut(s) 88, 112, 425, 695, 701
HpaII CCGG 1 cut(s) 611
HphI GGTGA 1 cut(s) 175
Hpy188I TCNGA 7 cut(s) 93, 150, 336, 538, 694, 700, 706
Hpy188III TCNNGA 3 cut(s) 13, 248, 340
Hpy99I CGWCG 1 cut(s) 194
HpyAV CCTTC 6 cut(s) 13, 43, 349, 367, 568, 652
HpyCH4III ACNGT 4 cut(s) 160, 169, 190, 332
HpyCH4V TGCA 5 cut(s) 317, 416, 515, 668, 676
HpyF10VI GCNNNNNNNGC 2 cut(s) 521, 682
HpyF3I CTNAG 5 cut(s) 149, 306, 400, 429, 537
Hsp92II CATG 3 cut(s) 293, 574, 680
HspAI GCGC 1 cut(s) 53
Kzo9I GATC 4 cut(s) 78, 152, 232, 336
LmnI GCTCC 1 cut(s) 298
Lsp1109I GCAGC 4 cut(s) 428, 445, 511, 680
LweI GCATC 1 cut(s) 655
MaeI CTAG 1 cut(s) 65
MaeIII GTNAC 3 cut(s) 181, 268, 326
MalI GATC 4 cut(s) 80, 154, 234, 338
MboI GATC 4 cut(s) 78, 152, 232, 336
MboII GAAGA 5 cut(s) 28, 227, 520, 580, 667
MlsI TGGCCA 1 cut(s) 5
MluCI AATT 1 cut(s) 365
MluNI TGGCCA 1 cut(s) 5
MnlI CCTC 7 cut(s) 22, 69, 156, 166, 306, 370, 405
Mox20I TGGCCA 1 cut(s) 5
MscI TGGCCA 1 cut(s) 5
MseI TTAA 3 cut(s) 282, 444, 636
Msp20I TGGCCA 1 cut(s) 5
MspA1I CMGCKG 2 cut(s) 524, 671
MspI CCGG 1 cut(s) 611
MvnI CGCG 2 cut(s) 83, 128
MwoI GCNNNNNNNGC 2 cut(s) 521, 682
NdeII GATC 4 cut(s) 78, 152, 232, 336
NlaIII CATG 3 cut(s) 293, 574, 680
NlaIV GGNNCC 2 cut(s) 393, 609
NmuCI GTSAC 3 cut(s) 181, 268, 326
NspI RCATGY 2 cut(s) 293, 680
NspV TTCGAA 1 cut(s) 110
PaeI GCATGC 1 cut(s) 293
PfeI GAWTC 5 cut(s) 88, 112, 425, 695, 701
PflMI CCANNNNNTGG 1 cut(s) 499
PkrI GCNGC 5 cut(s) 85, 418, 435, 526, 670
PpuMI RGGWCCY 1 cut(s) 392
Psp5II RGGWCCY 1 cut(s) 392
PspFI CCCAGC 1 cut(s) 650
PspN4I GGNNCC 2 cut(s) 393, 609
PspPI GGNCC 5 cut(s) 143, 197, 274, 358, 392
PspPPI RGGWCCY 1 cut(s) 392
PstNI CAGNNNCTG 1 cut(s) 97
PvuII CAGCTG 2 cut(s) 524, 671
RsaI GTAC 4 cut(s) 119, 125, 471, 482
RsaNI GTAC 4 cut(s) 118, 124, 470, 481
SaqAI TTAA 3 cut(s) 282, 444, 636
SatI GCNGC 5 cut(s) 84, 417, 434, 525, 669
Sau3AI GATC 4 cut(s) 78, 152, 232, 336
Sau96I GGNCC 5 cut(s) 143, 197, 274, 358, 392
SetI ASST 9 cut(s) 39, 66, 261, 328, 421, 438, 462, 526, 673
SfaNI GCATC 1 cut(s) 655
SfcI CTRYAG 1 cut(s) 420
SfuI TTCGAA 1 cut(s) 110
SinI GGWCC 2 cut(s) 197, 392
SphI GCATGC 1 cut(s) 293
Sse9I AATT 1 cut(s) 365
SsiI CCGC 2 cut(s) 83, 310
SspMI CTAG 1 cut(s) 65
StyI CCWWGG 4 cut(s) 64, 255, 322, 603
TaaI ACNGT 4 cut(s) 160, 169, 190, 332
TaqI TCGA 3 cut(s) 12, 110, 155
TasI AATT 1 cut(s) 365
TatI WGTACW 1 cut(s) 469
TauI GCSGC 1 cut(s) 86
TfiI GAWTC 5 cut(s) 88, 112, 425, 695, 701
Tru1I TTAA 3 cut(s) 282, 444, 636
Tru9I TTAA 3 cut(s) 282, 444, 636
TseFI GTSAC 3 cut(s) 181, 268, 326
TseI GCWGC 4 cut(s) 416, 433, 524, 668
Tsp45I GTSAC 3 cut(s) 181, 268, 326
TspDTI ATGAA 4 cut(s) 279, 398, 587, 633
Van91I CCANNNNNTGG 1 cut(s) 499
VpaK11BI GGWCC 2 cut(s) 197, 392
XapI RAATTY 1 cut(s) 365
XceI RCATGY 2 cut(s) 293, 680
XmaJI CCTAGG 1 cut(s) 64
XspI CTAG 1 cut(s) 65
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.