Rh4DG257200

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr4D
OG0000621
Physical Location & Seq
Reverse (-)
47385462 .. 47386994
1533 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh4DG257200.1

Sequence Viewer

Length: 744 bp
ATGGAACCAGAGAAAAGACCGTTGAAGATTGGGCCGTTTGGTTCATATATAGGAGGAGATTGTTTTGATGATGGAGTTCACTCAACACTGAGGAAAGTGGTGATCTGTTCTAGTCTATCGTCAGTACTCTACATTGGTACATCCACATTGAATATGATGATAACGGAAAATCATCTTGGTCACAGAAGCATGCATGGTTGTAGCAATGAGATTGGTGTCGACAAAACAAAGACGGATAATCCCAAGTTGATGCAGATCAAGCTTGATTATCCAGATGAATATTTGACTTCAATGCACGGATATTACGCAGATAGTTGGTACTTCCCTACCTACCTTACCTCACTCACTTTCACTAGCAACAGAAAAGTGTACGGACCATATGGAAATTTTGAAAACGAGGCAAGAAAATATTTCACAATCCAAGTCTCTGGAAGTAAGATCGTTGGGTTCCATGGTAGGTCTGATGAGTGGTTTAATCTTCGTGCTTTAGGAGCTTACCTTAAGCCTTTGGTTCATACACAACAATACTCCGACAATATTACTTCTGCACCAGTTGCTCATATTGGTTATCCGGCAGCGTATTATATGCTGCCTCTTCCTTGTCCTCCTCCATATTATGGAAATTACTATAATAATCCTAACCAGCCACCACAGGCTTCTCCACCTGCTCCGACTCCATATCCATATGGTAACTATTACGTTCCTCCTCCCGGTCCTCCTTCGGCATATAATAATGGATACTAA
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

247

Amino Acids

27.74

Weight (kDa)

7.07

Isoelectric Point (pI)

41.89

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Jacalin PF01419 10 - 166 4.9e-24 Jacalin-like lectin domain
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)
AarI CACCTGC 1 cut(s) 673
Acc36I ACCTGC 1 cut(s) 673
AccB7I CCANNNNNTGG 1 cut(s) 617
AccI GTMKAC 1 cut(s) 219
AcsI RAATTY 1 cut(s) 385
AfaI GTAC 4 cut(s) 126, 139, 320, 371
AfiI CCNNNNNNNGG 2 cut(s) 617, 710
AflII CTTAAG 1 cut(s) 500
AgsI TTSAA 4 cut(s) 25, 151, 291, 392
AjuI GAANNNNNNNTTGG 2 cut(s) 159, 191
AluBI AGCT 2 cut(s) 262, 494
AluI AGCT 2 cut(s) 262, 494
Alw26I GTCTC 1 cut(s) 430
AoxI GGCC 1 cut(s) 32
ApeKI GCWGC 2 cut(s) 575, 589
ApoI RAATTY 1 cut(s) 385
AspS9I GGNCC 3 cut(s) 32, 374, 713
AsuC2I CCSGG 1 cut(s) 711
AsuHPI GGTGA 1 cut(s) 112
AvaII GGWCC 2 cut(s) 374, 713
BbvI GCAGC 2 cut(s) 576, 587
BccI CCATC 1 cut(s) 65
BceAI ACGGC 1 cut(s) 19
BciVI GTATCC 1 cut(s) 731
BcnI CCSGG 1 cut(s) 711
BcoDI GTCTC 1 cut(s) 430
BfaI CTAG 2 cut(s) 111, 354
BfrI CTTAAG 1 cut(s) 500
BfuAI ACCTGC 1 cut(s) 673
BfuI GTATCC 1 cut(s) 731
BisI GCNGC 2 cut(s) 576, 590
BlsI GCNGC 2 cut(s) 577, 591
BmcAI AGTACT 1 cut(s) 126
Bme1390I CCNGG 1 cut(s) 711
Bme18I GGWCC 2 cut(s) 374, 713
BmgT120I GGNCC 3 cut(s) 32, 374, 713
BmiI GGNNCC 2 cut(s) 6, 449
BmrFI CCNGG 1 cut(s) 711
BmsI GCATC 1 cut(s) 240
BpuMI CCSGG 1 cut(s) 711
BsaBI GATNNNNATC 1 cut(s) 254
BsaJI CCNNGG 1 cut(s) 451
Bsc4I CCNNNNNNNGG 2 cut(s) 617, 710
Bse1I ACTGG 1 cut(s) 551
Bse3DI GCAATG 1 cut(s) 211
Bse8I GATNNNNATC 1 cut(s) 254
BseDI CCNNGG 1 cut(s) 451
BseGI GGATG 1 cut(s) 140
BseJI GATNNNNATC 1 cut(s) 254
BseLI CCNNNNNNNGG 2 cut(s) 617, 710
BseMI GCAATG 1 cut(s) 211
BseMII CTCAG 1 cut(s) 80
BseNI ACTGG 1 cut(s) 551
BseRI GAGGAG 3 cut(s) 69, 597, 696
BseXI GCAGC 2 cut(s) 576, 587
BsgI GTGCAG 1 cut(s) 531
BshFI GGCC 1 cut(s) 34
BsiSI CCGG 2 cut(s) 572, 711
BslI CCNNNNNNNGG 2 cut(s) 617, 710
BsmAI GTCTC 1 cut(s) 430
BsnI GGCC 1 cut(s) 34
Bsp143I GATC 3 cut(s) 102, 255, 438
Bsp19I CCATGG 1 cut(s) 451
BspANI GGCC 1 cut(s) 34
BspCNI CTCAG 1 cut(s) 81
BspLI GGNNCC 2 cut(s) 6, 449
BspMI ACCTGC 1 cut(s) 673
BspTI CTTAAG 1 cut(s) 500
BsrDI GCAATG 1 cut(s) 211
BsrI ACTGG 1 cut(s) 551
BssECI CCNNGG 1 cut(s) 451
BssMI GATC 3 cut(s) 102, 255, 438
BssT1I CCWWGG 1 cut(s) 451
Bst4CI ACNGT 1 cut(s) 21
Bst6I CTCTTC 1 cut(s) 600
BstAFI CTTAAG 1 cut(s) 500
BstAPI GCANNNNNTGC 1 cut(s) 554
BstC8I GCNNGC 1 cut(s) 191
BstDEI CTNAG 1 cut(s) 89
BstDSI CCRYGG 1 cut(s) 451
BstF5I GGATG 1 cut(s) 140
BstKTI GATC 3 cut(s) 105, 258, 441
BstMAI GTCTC 1 cut(s) 430
BstMBI GATC 3 cut(s) 102, 255, 438
BstMWI GCNNNNNNNGC 3 cut(s) 259, 491, 554
BstNSI RCATGY 1 cut(s) 193
BstSCI CCNGG 1 cut(s) 709
BstV1I GCAGC 2 cut(s) 576, 587
BstXI CCANNNNNNTGG 1 cut(s) 428
BsuI GTATCC 1 cut(s) 731
BsuRI GGCC 1 cut(s) 34
BtgI CCRYGG 1 cut(s) 451
BtsCI GGATG 1 cut(s) 140
BtsIMutI CAGTG 1 cut(s) 86
BveI ACCTGC 1 cut(s) 673
Cac8I GCNNGC 1 cut(s) 191
Cfr13I GGNCC 3 cut(s) 32, 374, 713
Csp6I GTAC 4 cut(s) 125, 138, 319, 370
CviAII CATG 3 cut(s) 190, 194, 452
CviJI RGCY 6 cut(s) 34, 262, 494, 505, 646, 656
CviKI_1 RGCY 6 cut(s) 34, 262, 494, 505, 646, 656
CviQI GTAC 4 cut(s) 125, 138, 319, 370
DdeI CTNAG 1 cut(s) 89
DpnI GATC 3 cut(s) 104, 257, 440
DpnII GATC 3 cut(s) 102, 255, 438
Eam1104I CTCTTC 1 cut(s) 600
EarI CTCTTC 1 cut(s) 600
Eco130I CCWWGG 1 cut(s) 451
Eco47I GGWCC 2 cut(s) 374, 713
EcoT14I CCWWGG 1 cut(s) 451
EcoT22I ATGCAT 1 cut(s) 195
ErhI CCWWGG 1 cut(s) 451
FaeI CATG 3 cut(s) 193, 197, 455
FatI CATG 3 cut(s) 189, 193, 451
FauNDI CATATG 2 cut(s) 379, 685
FblI GTMKAC 1 cut(s) 219
Fnu4HI GCNGC 2 cut(s) 576, 590
FokI GGATG 1 cut(s) 127
Fsp4HI GCNGC 2 cut(s) 576, 590
FspBI CTAG 2 cut(s) 111, 354
GluI GCNGC 2 cut(s) 576, 590
HaeIII GGCC 1 cut(s) 34
HapII CCGG 2 cut(s) 572, 711
Hin1II CATG 3 cut(s) 193, 197, 455
HincII GTYRAC 1 cut(s) 220
HindII GTYRAC 1 cut(s) 220
HindIII AAGCTT 1 cut(s) 260
HinfI GANTC 1 cut(s) 673
HpaII CCGG 2 cut(s) 572, 711
HphI GGTGA 1 cut(s) 112
Hpy166II GTNNAC 3 cut(s) 79, 220, 370
Hpy188I TCNGA 3 cut(s) 463, 532, 672
Hpy188III TCNNGA 2 cut(s) 272, 429
Hpy8I GTNNAC 3 cut(s) 79, 220, 370
HpyAV CCTTC 1 cut(s) 729
HpyCH4III ACNGT 1 cut(s) 21
HpyCH4IV ACGT 1 cut(s) 699
HpyCH4V TGCA 4 cut(s) 193, 253, 295, 548
HpyF10VI GCNNNNNNNGC 3 cut(s) 259, 491, 554
HpyF3I CTNAG 1 cut(s) 89
HpySE526I ACGT 1 cut(s) 699
Hsp92II CATG 3 cut(s) 193, 197, 455
Kzo9I GATC 3 cut(s) 102, 255, 438
LmnI GCTCC 2 cut(s) 491, 673
LpnPI CCDG 9 cut(s) 21, 285, 414, 564, 585, 638, 656, 678, 724
Lsp1109I GCAGC 2 cut(s) 576, 587
LweI GCATC 1 cut(s) 240
MaeI CTAG 2 cut(s) 111, 354
MaeII ACGT 1 cut(s) 699
MaeIII GTNAC 2 cut(s) 179, 689
MalI GATC 3 cut(s) 104, 257, 440
MboI GATC 3 cut(s) 102, 255, 438
MboII GAAGA 3 cut(s) 37, 470, 587
MluCI AATT 2 cut(s) 385, 622
MlyI GAGTC 1 cut(s) 667
MmeI TCCRAC 2 cut(s) 555, 695
Mph1103I ATGCAT 1 cut(s) 195
MseI TTAA 2 cut(s) 474, 501
MspCI CTTAAG 1 cut(s) 500
MspI CCGG 2 cut(s) 572, 711
MspR9I CCNGG 1 cut(s) 711
MwoI GCNNNNNNNGC 3 cut(s) 259, 491, 554
NciI CCSGG 1 cut(s) 711
NcoI CCATGG 1 cut(s) 451
NdeI CATATG 2 cut(s) 379, 685
NdeII GATC 3 cut(s) 102, 255, 438
NlaIII CATG 3 cut(s) 193, 197, 455
NlaIV GGNNCC 2 cut(s) 6, 449
NmuCI GTSAC 1 cut(s) 179
NsiI ATGCAT 1 cut(s) 195
NspI RCATGY 1 cut(s) 193
PaeI GCATGC 1 cut(s) 193
PaqCI CACCTGC 1 cut(s) 673
PflMI CCANNNNNTGG 1 cut(s) 617
PkrI GCNGC 2 cut(s) 577, 591
PleI GAGTC 1 cut(s) 667
PpsI GAGTC 1 cut(s) 667
PspN4I GGNNCC 2 cut(s) 6, 449
PspPI GGNCC 3 cut(s) 32, 374, 713
RsaI GTAC 4 cut(s) 126, 139, 320, 371
RsaNI GTAC 4 cut(s) 125, 138, 319, 370
SalI GTCGAC 1 cut(s) 218
SaqAI TTAA 2 cut(s) 474, 501
SatI GCNGC 2 cut(s) 576, 590
Sau3AI GATC 3 cut(s) 102, 255, 438
Sau96I GGNCC 3 cut(s) 32, 374, 713
ScaI AGTACT 1 cut(s) 126
SchI GAGTC 1 cut(s) 667
ScrFI CCNGG 1 cut(s) 711
SetI ASST 9 cut(s) 264, 332, 336, 341, 461, 496, 501, 667, 702
SfaNI GCATC 1 cut(s) 240
SinI GGWCC 2 cut(s) 374, 713
SmlI CTYRAG 1 cut(s) 500
SmoI CTYRAG 1 cut(s) 500
SphI GCATGC 1 cut(s) 193
Sse9I AATT 2 cut(s) 385, 622
SspI AATATT 3 cut(s) 281, 410, 538
SspMI CTAG 2 cut(s) 111, 354
StyD4I CCNGG 1 cut(s) 709
StyI CCWWGG 1 cut(s) 451
TaaI ACNGT 1 cut(s) 21
TaiI ACGT 1 cut(s) 702
TaqI TCGA 1 cut(s) 219
TasI AATT 2 cut(s) 385, 622
TatI WGTACW 1 cut(s) 124
Tru1I TTAA 2 cut(s) 474, 501
Tru9I TTAA 2 cut(s) 474, 501
TscAI CASTG 1 cut(s) 93
TseFI GTSAC 1 cut(s) 179
TseI GCWGC 2 cut(s) 575, 589
Tsp45I GTSAC 1 cut(s) 179
TspDTI ATGAA 3 cut(s) 33, 291, 503
TspGWI ACGGA 4 cut(s) 179, 248, 312, 387
TspRI CASTG 1 cut(s) 93
Van91I CCANNNNNTGG 1 cut(s) 617
Vha464I CTTAAG 1 cut(s) 500
VpaK11BI GGWCC 2 cut(s) 374, 713
XapI RAATTY 1 cut(s) 385
XceI RCATGY 1 cut(s) 193
XmiI GTMKAC 1 cut(s) 219
XspI CTAG 2 cut(s) 111, 354
ZrmI AGTACT 1 cut(s) 126
Zsp2I ATGCAT 1 cut(s) 195
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.