Rroxscaffold_5G00366970

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000005
OG0000621
Physical Location & Seq
Reverse (-)
48943161 .. 48958112
14952 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_5G00366970.1

Sequence Viewer

Length: 627 bp
ATGTTGGCCCTGCTGCCTGCTTGGAAGAGTATGATGAAGAAAATCCAAGAAGTACCAATAATTACGACCACCATTTTCACCCTGCTTGCATTCTTGAATGGATGGAAAGAAGTGACTCATGTCCGTGTGCGCTCAGAAGTGATATTTGATCCTCCTATTGATTTATGGTATCAAGCTGTACAGTTCCGTTCTCATCAACTATCCCGTTTTCGAACCATTAAAATACTCGAGACAACCCAAAATATTAGTTCTATGGAACCAGAGAAAAAACCGTTGAAGGTTGGACCGTTTGGTTCAGATAGTGGAGGAGATCGTTTTGATGACGGAGTTCACTCAACGGTGAGGCAAGTGGTGATCTGTTCTAGTCTATCGTCAATTCTCTACATCCAGATTGAATATGATGACAACGGAAAATCATCTTGGTCACAGAAGCATGGTTGTAGCAATCCCATCCGTGTGGACAAAACTTCTAAACTATCATTGCGGTATATCTTAAAGAACATAACAGGCAATGCTGCTACTCCATTCTTGCTTGTAAGAGTAAATGAACTAACTGGAGGAGCATCTTTGGCTTCGAACATTGCCCTGGTGAAGAATAATGCACTTGTTGGTTCTAAAATTTCGTAG
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
Jacalin

Protein Analysis

208

Amino Acids

23.18

Weight (kDa)

9.6

Isoelectric Point (pI)

35.96

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Jacalin PF01419 94 - 170 5.6e-10 Jacalin-like lectin domain
Indigoidine_A PF04227 166 - 208 6.9e-11 Indigoidine synthase A like 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: OG0000621)

Species Orthologous Gene IDs
fragaria_vesca FvH4_3g32560 FvH4_3g35880 FvH4_4g19501 FvH4_4g19530 FvH4_4g19531 FvH4_4g19540 FvH4_4g19540
prunus_persica Prupe.1G121600_v2.0.a1 Prupe.1G121700_v2.0.a1
rosa_chinensis RchiOBHm_Chr4g0416301 RchiOBHm_Chr4g0424661
rosa_laevigata RLG00000007388 RLG00000007432 RLG00000007434 RLG00000007435 RLG00000007439 RLG00000007441 RLG00000007442 RLG00000007458 RLG00000007465 RLG00000007997 RLG00000008015 RLG00000008016 RLG00000008017 RLG00000035315
rosa_multiflora Rmu_co8150926.1_g000001 Rmu_co8225682.1_g000001 Rmu_co8296077.1_g000001 Rmu_sc0004841.1_g000022 Rmu_sc0006553.1_g000008 Rmu_sc0008889.1_g000002
rosa_roxburghii Rroxscaffold_1G00030220 Rroxscaffold_2G00114820 Rroxscaffold_3G00219510 Rroxscaffold_3G00255600 Rroxscaffold_4G00304060 Rroxscaffold_4G00330360 Rroxscaffold_4G00330400 Rroxscaffold_5G00359920 Rroxscaffold_5G00359930 Rroxscaffold_5G00359960 Rroxscaffold_5G00366600 Rroxscaffold_5G00366630 Rroxscaffold_5G00366640 Rroxscaffold_5G00366710 Rroxscaffold_5G00366970
rosa_rugosa Rorug04G0138400 Rorug04G0138500 Rorug04G0138700 Rorug04G0140600 Rorug04G0199000 Rorug07G0061600
rosa_samantha Rh4AG255800 Rh4AG255900 Rh4AG256000 Rh4AG256200 Rh4BG261200 Rh4BG261300 Rh4BG261600 Rh4CG212100 Rh4CG212800 Rh4CG212900 Rh4CG272300 Rh4CG272500 Rh4CG272600 Rh4CG272800 Rh4CG275800 Rh4DG255800 Rh4DG255900 Rh4DG256200 Rh4DG257200 Rh4DG257300 Rh7BG190600 Rh7CG198100
rosa_wichuraiana Rw1G001980 Rw4G022090 Rw4G024000 Rw4G024010 Rw7G016430

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AciI CCGC 1 cut(s) 484
AclWI GGATC 1 cut(s) 143
AcsI RAATTY 1 cut(s) 618
AfaI GTAC 2 cut(s) 54, 180
AgsI TTSAA 3 cut(s) 97, 277, 395
AjnI CCWGG 1 cut(s) 585
AjuI GAANNNNNNNTTGG 2 cut(s) 403, 435
AluBI AGCT 1 cut(s) 176
AluI AGCT 1 cut(s) 176
Alw26I GTCTC 1 cut(s) 224
AlwI GGATC 1 cut(s) 143
Ama87I CYCGRG 1 cut(s) 227
AoxI GGCC 1 cut(s) 6
ApeKI GCWGC 2 cut(s) 13, 515
ApoI RAATTY 1 cut(s) 618
AspLEI GCGC 1 cut(s) 132
AspS9I GGNCC 2 cut(s) 7, 284
AsuHPI GGTGA 4 cut(s) 70, 352, 364, 601
AsuII TTCGAA 2 cut(s) 211, 575
AvaI CYCGRG 1 cut(s) 227
AvaII GGWCC 1 cut(s) 284
BbvI GCAGC 1 cut(s) 502
BccI CCATC 2 cut(s) 96, 458
BciT130I CCWGG 1 cut(s) 587
BcoDI GTCTC 1 cut(s) 224
BfaI CTAG 1 cut(s) 363
BisI GCNGC 2 cut(s) 14, 516
BlsI GCNGC 2 cut(s) 15, 517
Bme1390I CCNGG 1 cut(s) 587
Bme18I GGWCC 1 cut(s) 284
BmeT110I CYCGRG 1 cut(s) 227
BmgT120I GGNCC 2 cut(s) 7, 284
BmiI GGNNCC 1 cut(s) 258
BmrFI CCNGG 1 cut(s) 587
BmsI GCATC 1 cut(s) 572
BoxI GACNNNNGTC 1 cut(s) 119
BpmI CTGGAG 1 cut(s) 576
Bpu14I TTCGAA 2 cut(s) 211, 575
BsaJI CCNNGG 1 cut(s) 585
Bse1I ACTGG 1 cut(s) 559
Bse3DI GCAATG 3 cut(s) 479, 517, 579
BseBI CCWGG 1 cut(s) 587
BseDI CCNNGG 1 cut(s) 585
BseGI GGATG 3 cut(s) 107, 384, 450
BseMI GCAATG 3 cut(s) 479, 517, 579
BseMII CTCAG 1 cut(s) 147
BseNI ACTGG 1 cut(s) 559
BseRI GAGGAG 2 cut(s) 321, 573
BseXI GCAGC 1 cut(s) 502
BshFI GGCC 1 cut(s) 8
BsiHKCI CYCGRG 1 cut(s) 227
BsmAI GTCTC 1 cut(s) 224
BsmI GAATGC 1 cut(s) 89
BsnI GGCC 1 cut(s) 8
BsoBI CYCGRG 1 cut(s) 227
Bsp119I TTCGAA 2 cut(s) 211, 575
Bsp1407I TGTACA 1 cut(s) 178
Bsp143I GATC 3 cut(s) 148, 310, 354
BspACI CCGC 1 cut(s) 484
BspANI GGCC 1 cut(s) 8
BspCNI CTCAG 1 cut(s) 146
BspLI GGNNCC 1 cut(s) 258
BspPI GGATC 1 cut(s) 143
BspT104I TTCGAA 2 cut(s) 211, 575
BsrDI GCAATG 3 cut(s) 479, 517, 579
BsrGI TGTACA 1 cut(s) 178
BsrI ACTGG 1 cut(s) 559
BssECI CCNNGG 1 cut(s) 585
BssMI GATC 3 cut(s) 148, 310, 354
Bst2UI CCWGG 1 cut(s) 587
Bst4CI ACNGT 4 cut(s) 183, 273, 288, 340
Bst6I CTCTTC 1 cut(s) 20
BstAUI TGTACA 1 cut(s) 178
BstBI TTCGAA 2 cut(s) 211, 575
BstC8I GCNNGC 2 cut(s) 18, 87
BstDEI CTNAG 1 cut(s) 133
BstF5I GGATG 3 cut(s) 107, 384, 450
BstHHI GCGC 1 cut(s) 132
BstKTI GATC 3 cut(s) 151, 313, 357
BstMAI GTCTC 1 cut(s) 224
BstMBI GATC 3 cut(s) 148, 310, 354
BstMWI GCNNNNNNNGC 1 cut(s) 569
BstNI CCWGG 1 cut(s) 587
BstPAI GACNNNNGTC 1 cut(s) 119
BstSCI CCNGG 1 cut(s) 585
BstV1I GCAGC 1 cut(s) 502
BstXI CCANNNNNNTGG 1 cut(s) 457
BsuRI GGCC 1 cut(s) 8
BtsCI GGATG 3 cut(s) 107, 384, 450
Cac8I GCNNGC 2 cut(s) 18, 87
CfoI GCGC 1 cut(s) 132
Cfr13I GGNCC 2 cut(s) 7, 284
Csp6I GTAC 2 cut(s) 53, 179
CviAII CATG 2 cut(s) 119, 434
CviJI RGCY 3 cut(s) 8, 176, 572
CviKI_1 RGCY 3 cut(s) 8, 176, 572
CviQI GTAC 2 cut(s) 53, 179
DdeI CTNAG 1 cut(s) 133
DpnI GATC 3 cut(s) 150, 312, 356
DpnII GATC 3 cut(s) 148, 310, 354
Eam1104I CTCTTC 1 cut(s) 20
EarI CTCTTC 1 cut(s) 20
Eco47I GGWCC 1 cut(s) 284
Eco88I CYCGRG 1 cut(s) 227
EcoRII CCWGG 1 cut(s) 585
FaeI CATG 2 cut(s) 122, 437
FaiI YATR 8 cut(s) 32, 120, 166, 254, 399, 435, 489, 503
FatI CATG 2 cut(s) 118, 433
Fnu4HI GCNGC 2 cut(s) 14, 516
FokI GGATG 3 cut(s) 114, 371, 437
Fsp4HI GCNGC 2 cut(s) 14, 516
FspBI CTAG 1 cut(s) 363
GlaI GCGC 1 cut(s) 131
GluI GCNGC 2 cut(s) 14, 516
GsuI CTGGAG 1 cut(s) 576
HaeIII GGCC 1 cut(s) 8
HhaI GCGC 1 cut(s) 132
Hin1II CATG 2 cut(s) 122, 437
Hin6I GCGC 1 cut(s) 130
HinP1I GCGC 1 cut(s) 130
HinfI GANTC 1 cut(s) 115
HphI GGTGA 4 cut(s) 70, 352, 364, 601
Hpy166II GTNNAC 2 cut(s) 331, 460
Hpy188I TCNGA 2 cut(s) 136, 298
Hpy188III TCNNGA 3 cut(s) 94, 229, 388
Hpy8I GTNNAC 2 cut(s) 331, 460
HpyAV CCTTC 1 cut(s) 271
HpyCH4III ACNGT 4 cut(s) 183, 273, 288, 340
HpyCH4V TGCA 2 cut(s) 89, 602
HpyF10VI GCNNNNNNNGC 1 cut(s) 569
HpyF3I CTNAG 1 cut(s) 133
Hsp92II CATG 2 cut(s) 122, 437
HspAI GCGC 1 cut(s) 130
Kzo9I GATC 3 cut(s) 148, 310, 354
LmnI GCTCC 1 cut(s) 560
LpnPI CCDG 9 cut(s) 23, 30, 95, 273, 401, 492, 540, 572, 599
Lsp1109I GCAGC 1 cut(s) 502
LweI GCATC 1 cut(s) 572
MaeI CTAG 1 cut(s) 363
MaeIII GTNAC 2 cut(s) 112, 423
MalI GATC 3 cut(s) 150, 312, 356
MboI GATC 3 cut(s) 148, 310, 354
MboII GAAGA 3 cut(s) 37, 49, 604
MluCI AATT 3 cut(s) 60, 375, 618
MlyI GAGTC 1 cut(s) 109
MmeI TCCRAC 1 cut(s) 262
MnlI CCTC 4 cut(s) 162, 299, 336, 551
MseI TTAA 2 cut(s) 219, 494
MslI CAYNNNNRTG 2 cut(s) 123, 455
MspR9I CCNGG 1 cut(s) 587
Mva1269I GAATGC 1 cut(s) 89
MvaI CCWGG 1 cut(s) 587
MwoI GCNNNNNNNGC 1 cut(s) 569
NdeII GATC 3 cut(s) 148, 310, 354
NlaIII CATG 2 cut(s) 122, 437
NlaIV GGNNCC 1 cut(s) 258
NmuCI GTSAC 2 cut(s) 112, 423
NspV TTCGAA 2 cut(s) 211, 575
PaeR7I CTCGAG 1 cut(s) 227
PctI GAATGC 1 cut(s) 89
PkrI GCNGC 2 cut(s) 15, 517
PleI GAGTC 1 cut(s) 109
PpsI GAGTC 1 cut(s) 109
PshAI GACNNNNGTC 1 cut(s) 119
Psp6I CCWGG 1 cut(s) 585
PspGI CCWGG 1 cut(s) 585
PspN4I GGNNCC 1 cut(s) 258
PspPI GGNCC 2 cut(s) 7, 284
RsaI GTAC 2 cut(s) 54, 180
RsaNI GTAC 2 cut(s) 53, 179
RseI CAYNNNNRTG 2 cut(s) 123, 455
SaqAI TTAA 2 cut(s) 219, 494
SatI GCNGC 2 cut(s) 14, 516
Sau3AI GATC 3 cut(s) 148, 310, 354
Sau96I GGNCC 2 cut(s) 7, 284
SchI GAGTC 1 cut(s) 109
ScrFI CCNGG 1 cut(s) 587
SetI ASST 2 cut(s) 178, 282
SfaNI GCATC 1 cut(s) 572
Sfr274I CTCGAG 1 cut(s) 227
SfuI TTCGAA 2 cut(s) 211, 575
SinI GGWCC 1 cut(s) 284
SlaI CTCGAG 1 cut(s) 227
SmiMI CAYNNNNRTG 2 cut(s) 123, 455
SmlI CTYRAG 1 cut(s) 227
SmoI CTYRAG 1 cut(s) 227
Sse9I AATT 3 cut(s) 60, 375, 618
SsiI CCGC 1 cut(s) 484
SspI AATATT 1 cut(s) 244
SspMI CTAG 1 cut(s) 363
StyD4I CCNGG 1 cut(s) 585
TaaI ACNGT 4 cut(s) 183, 273, 288, 340
TaqI TCGA 3 cut(s) 211, 228, 575
TasI AATT 3 cut(s) 60, 375, 618
TatI WGTACW 1 cut(s) 178
Tru1I TTAA 2 cut(s) 219, 494
Tru9I TTAA 2 cut(s) 219, 494
TseFI GTSAC 2 cut(s) 112, 423
TseI GCWGC 2 cut(s) 13, 515
Tsp45I GTSAC 2 cut(s) 112, 423
TspDTI ATGAA 2 cut(s) 50, 561
TspGWI ACGGA 5 cut(s) 113, 176, 339, 423, 443
VpaK11BI GGWCC 1 cut(s) 284
XapI RAATTY 1 cut(s) 618
XhoI CTCGAG 1 cut(s) 227
XspI CTAG 1 cut(s) 363
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.