Rh4DG257300

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr4D
OG0000621
Physical Location & Seq
Reverse (-)
47396127 .. 47406836
10710 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh4DG257300.1

Sequence Viewer

Length: 813 bp
ATGGAACCAAAGAAAAAACCGTTGAAGGTTGGACTGTTTGGTTCAGATAGTGGAGGAGATCATTTTGATGACGGAGATCACTCAACGGTGAGGCAAGTGGTGATCTGTTCTAGTCTATCGTCAATTCTCTACAAACAGATTGAATATGATGACAACGGAAAATCATCTTGGTCACAGAAGCATGGTTGTAGCAATCCCATCGGAGTGGACAAAACAGAGACCATCAAGCTTGATTATCCAGATGAATATCTGACTTCAATTCACGGATATTGCACAGATAGTTGGTCTGATGAGTGGTTTGATCTTCGTGCATTAGGAGCTTACCTTAAGCCTGTGGTTCATACACAACAATACCCCAACAATATTAGTCCTGCACCAGTTGCTCATATTGCTTATCCGGCTGCGTATAATTATACGCCGCCTCTTCCTCCTCCTCCTCCATATTATGGAAATTACTATAATAATCCTAACCAGCCACCACAAGCTGCTGCACCTGCTCCGACTCCATATCCATATGGTAACTATTACGTTCCTCCACTCGGTCCTCGACCGCCATATAATAATGGATACTATGACTATCAGATGTCACAGGCACCGCCGCCGCCGCCGCCTACTTCTCTTGGAAGTCCTAGTAAGCCGAAAAGTGCTCCCAGTAAGCCCAAGGTTGCTAAAAACAATGGCCCTAAAAATGTATCTTACAGGGTTTTAGGGAATAAAGTCGGTGGAAACACAGGAGACCATAATGGAGTTTTCAACGTTGGCAACAAGAATACTGGTCGCCACATGCAAGACGATGATGGAGACGAAGAATGA
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

270

Amino Acids

29.62

Weight (kDa)

6.23

Isoelectric Point (pI)

47.96

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Jacalin PF01419 10 - 93 3e-15 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) 502
Acc36I ACCTGC 1 cut(s) 502
AccB1I GGYRCC 1 cut(s) 592
AccB7I CCANNNNNTGG 1 cut(s) 446
AciI CCGC 7 cut(s) 419, 551, 596, 599, 602, 605, 608
AclI AACGTT 1 cut(s) 756
AfiI CCNNNNNNNGG 2 cut(s) 446, 539
AflII CTTAAG 1 cut(s) 326
AgsI TTSAA 4 cut(s) 25, 143, 258, 754
AjuI GAANNNNNNNTTGG 2 cut(s) 151, 183
AluBI AGCT 3 cut(s) 229, 320, 485
AluI AGCT 3 cut(s) 229, 320, 485
Alw21I GWGCWC 1 cut(s) 649
Alw26I GTCTC 3 cut(s) 212, 729, 795
AoxI GGCC 1 cut(s) 679
ApeKI GCWGC 3 cut(s) 401, 485, 488
AspS9I GGNCC 2 cut(s) 542, 680
AsuHPI GGTGA 2 cut(s) 100, 112
AvaII GGWCC 1 cut(s) 542
BanI GGYRCC 1 cut(s) 592
Bbv12I GWGCWC 1 cut(s) 649
BbvI GCAGC 3 cut(s) 388, 472, 475
BccI CCATC 3 cut(s) 206, 230, 791
BcgI CGANNNNNNTGC 2 cut(s) 181, 215
BciVI GTATCC 1 cut(s) 560
BcoDI GTCTC 3 cut(s) 212, 729, 795
BfaI CTAG 2 cut(s) 111, 630
BfrI CTTAAG 1 cut(s) 326
BfuAI ACCTGC 1 cut(s) 502
BfuI GTATCC 1 cut(s) 560
BisI GCNGC 8 cut(s) 402, 419, 486, 489, 599, 602, 605, 608
BlsI GCNGC 8 cut(s) 403, 420, 487, 490, 600, 603, 606, 609
Bme18I GGWCC 1 cut(s) 542
BmgT120I GGNCC 2 cut(s) 542, 680
BmiI GGNNCC 2 cut(s) 6, 594
BmrI ACTGGG 1 cut(s) 645
BmuI ACTGGG 1 cut(s) 645
BsaBI GATNNNNATC 1 cut(s) 246
BsaI GGTCTC 2 cut(s) 212, 729
BsaJI CCNNGG 1 cut(s) 660
Bsc4I CCNNNNNNNGG 2 cut(s) 446, 539
Bse1I ACTGG 3 cut(s) 377, 651, 778
Bse8I GATNNNNATC 1 cut(s) 246
BseDI CCNNGG 1 cut(s) 660
BseJI GATNNNNATC 1 cut(s) 246
BseLI CCNNNNNNNGG 2 cut(s) 446, 539
BseNI ACTGG 3 cut(s) 377, 651, 778
BseRI GAGGAG 4 cut(s) 69, 420, 423, 426
BseXI GCAGC 3 cut(s) 388, 472, 475
BsgI GTGCAG 2 cut(s) 357, 474
Bsh1285I CGRYCG 1 cut(s) 551
BshFI GGCC 1 cut(s) 681
BshNI GGYRCC 1 cut(s) 592
BsiEI CGRYCG 1 cut(s) 551
BsiHKAI GWGCWC 1 cut(s) 649
BsiSI CCGG 1 cut(s) 398
BslI CCNNNNNNNGG 2 cut(s) 446, 539
BsmAI GTCTC 3 cut(s) 212, 729, 795
BsmBI CGTCTC 1 cut(s) 795
BsnI GGCC 1 cut(s) 681
Bso31I GGTCTC 2 cut(s) 212, 729
Bsp1286I GDGCHC 1 cut(s) 649
Bsp143I GATC 4 cut(s) 58, 76, 102, 301
BspACI CCGC 7 cut(s) 419, 551, 596, 599, 602, 605, 608
BspANI GGCC 1 cut(s) 681
BspLI GGNNCC 2 cut(s) 6, 594
BspMI ACCTGC 1 cut(s) 502
BspT107I GGYRCC 1 cut(s) 592
BspTI CTTAAG 1 cut(s) 326
BspTNI GGTCTC 2 cut(s) 212, 729
BsrI ACTGG 3 cut(s) 377, 651, 778
BssECI CCNNGG 1 cut(s) 660
BssMI GATC 4 cut(s) 58, 76, 102, 301
BssT1I CCWWGG 1 cut(s) 660
Bst4CI ACNGT 3 cut(s) 21, 36, 88
Bst6I CTCTTC 1 cut(s) 429
BstAFI CTTAAG 1 cut(s) 326
BstAPI GCANNNNNTGC 1 cut(s) 380
BstKTI GATC 4 cut(s) 61, 79, 105, 304
BstMAI GTCTC 3 cut(s) 212, 729, 795
BstMBI GATC 4 cut(s) 58, 76, 102, 301
BstMCI CGRYCG 1 cut(s) 551
BstMWI GCNNNNNNNGC 7 cut(s) 317, 380, 389, 398, 494, 604, 607
BstNSI RCATGY 1 cut(s) 787
BstV1I GCAGC 3 cut(s) 388, 472, 475
BstXI CCANNNNNNTGG 1 cut(s) 205
BsuI GTATCC 1 cut(s) 560
BsuRI GGCC 1 cut(s) 681
BveI ACCTGC 1 cut(s) 502
Cfr13I GGNCC 2 cut(s) 542, 680
CviAII CATG 2 cut(s) 182, 784
CviJI RGCY 9 cut(s) 229, 320, 331, 401, 475, 485, 637, 658, 681
CviKI_1 RGCY 9 cut(s) 229, 320, 331, 401, 475, 485, 637, 658, 681
DpnI GATC 4 cut(s) 60, 78, 104, 303
DpnII GATC 4 cut(s) 58, 76, 102, 301
Eam1104I CTCTTC 1 cut(s) 429
EarI CTCTTC 1 cut(s) 429
Eco130I CCWWGG 1 cut(s) 660
Eco31I GGTCTC 2 cut(s) 212, 729
Eco47I GGWCC 1 cut(s) 542
EcoT14I CCWWGG 1 cut(s) 660
ErhI CCWWGG 1 cut(s) 660
Esp3I CGTCTC 1 cut(s) 795
FaeI CATG 2 cut(s) 185, 787
FatI CATG 2 cut(s) 181, 783
FauNDI CATATG 1 cut(s) 514
Fnu4HI GCNGC 8 cut(s) 402, 419, 486, 489, 599, 602, 605, 608
Fsp4HI GCNGC 8 cut(s) 402, 419, 486, 489, 599, 602, 605, 608
FspBI CTAG 2 cut(s) 111, 630
GluI GCNGC 8 cut(s) 402, 419, 486, 489, 599, 602, 605, 608
HaeIII GGCC 1 cut(s) 681
HapII CCGG 1 cut(s) 398
Hin1II CATG 2 cut(s) 185, 787
HindIII AAGCTT 1 cut(s) 227
HinfI GANTC 1 cut(s) 502
HpaII CCGG 1 cut(s) 398
HphI GGTGA 2 cut(s) 100, 112
Hpy166II GTNNAC 1 cut(s) 208
Hpy188I TCNGA 6 cut(s) 46, 203, 252, 289, 501, 582
Hpy188III TCNNGA 1 cut(s) 239
Hpy8I GTNNAC 1 cut(s) 208
HpyAV CCTTC 1 cut(s) 19
HpyCH4III ACNGT 3 cut(s) 21, 36, 88
HpyCH4IV ACGT 2 cut(s) 528, 756
HpyCH4V TGCA 5 cut(s) 273, 311, 374, 491, 787
HpyF10VI GCNNNNNNNGC 7 cut(s) 317, 380, 389, 398, 494, 604, 607
HpySE526I ACGT 2 cut(s) 528, 756
Hsp92II CATG 2 cut(s) 185, 787
Kzo9I GATC 4 cut(s) 58, 76, 102, 301
LmnI GCTCC 3 cut(s) 317, 502, 652
Lsp1109I GCAGC 3 cut(s) 388, 472, 475
MaeI CTAG 2 cut(s) 111, 630
MaeII ACGT 2 cut(s) 528, 756
MaeIII GTNAC 3 cut(s) 171, 518, 585
MalI GATC 4 cut(s) 60, 78, 104, 303
MboI GATC 4 cut(s) 58, 76, 102, 301
MboII GAAGA 2 cut(s) 296, 416
MhlI GDGCHC 1 cut(s) 649
MluCI AATT 4 cut(s) 123, 258, 409, 451
MlyI GAGTC 1 cut(s) 496
MmeI TCCRAC 2 cut(s) 10, 524
MnlI CCTC 9 cut(s) 47, 84, 432, 438, 441, 444, 447, 543, 555
MseI TTAA 1 cut(s) 327
MslI CAYNNNNRTG 2 cut(s) 66, 203
MspCI CTTAAG 1 cut(s) 326
MspI CCGG 1 cut(s) 398
MwoI GCNNNNNNNGC 7 cut(s) 317, 380, 389, 398, 494, 604, 607
NdeI CATATG 1 cut(s) 514
NdeII GATC 4 cut(s) 58, 76, 102, 301
NlaIII CATG 2 cut(s) 185, 787
NlaIV GGNNCC 2 cut(s) 6, 594
NmuCI GTSAC 2 cut(s) 171, 585
NspI RCATGY 1 cut(s) 787
PaqCI CACCTGC 1 cut(s) 502
PflMI CCANNNNNTGG 1 cut(s) 446
PkrI GCNGC 8 cut(s) 403, 420, 487, 490, 600, 603, 606, 609
PleI GAGTC 1 cut(s) 496
PpsI GAGTC 1 cut(s) 496
Psp1406I AACGTT 1 cut(s) 756
PspN4I GGNNCC 2 cut(s) 6, 594
PspPI GGNCC 2 cut(s) 542, 680
RseI CAYNNNNRTG 2 cut(s) 66, 203
SaqAI TTAA 1 cut(s) 327
SatI GCNGC 8 cut(s) 402, 419, 486, 489, 599, 602, 605, 608
Sau3AI GATC 4 cut(s) 58, 76, 102, 301
Sau96I GGNCC 2 cut(s) 542, 680
SchI GAGTC 1 cut(s) 496
SduI GDGCHC 1 cut(s) 649
SetI ASST 9 cut(s) 30, 231, 322, 327, 487, 496, 531, 666, 759
SinI GGWCC 1 cut(s) 542
SmiMI CAYNNNNRTG 2 cut(s) 66, 203
SmlI CTYRAG 1 cut(s) 326
SmoI CTYRAG 1 cut(s) 326
Sse9I AATT 4 cut(s) 123, 258, 409, 451
SsiI CCGC 7 cut(s) 419, 551, 596, 599, 602, 605, 608
SspI AATATT 1 cut(s) 364
SspMI CTAG 2 cut(s) 111, 630
StyI CCWWGG 1 cut(s) 660
TaaI ACNGT 3 cut(s) 21, 36, 88
TaiI ACGT 2 cut(s) 531, 759
TaqI TCGA 1 cut(s) 547
TaqII GACCGA 1 cut(s) 530
TasI AATT 4 cut(s) 123, 258, 409, 451
TauI GCSGC 5 cut(s) 421, 601, 604, 607, 610
Tru1I TTAA 1 cut(s) 327
Tru9I TTAA 1 cut(s) 327
TseFI GTSAC 2 cut(s) 171, 585
TseI GCWGC 3 cut(s) 401, 485, 488
Tsp45I GTSAC 2 cut(s) 171, 585
TspDTI ATGAA 2 cut(s) 258, 329
TspGWI ACGGA 3 cut(s) 87, 171, 279
Van91I CCANNNNNTGG 1 cut(s) 446
Vha464I CTTAAG 1 cut(s) 326
VpaK11BI GGWCC 1 cut(s) 542
XceI RCATGY 1 cut(s) 787
XspI CTAG 2 cut(s) 111, 630
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.