Rh5AG244600

Cytochrome c-type biogenesis ccda-like chloroplastic protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5A
OG0012312
Physical Location & Seq
Reverse (-)
29844091 .. 29848809
4719 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5AG244600.1

Sequence Viewer

Length: 834 bp
ATGGCAAAGGCTGTAACTACGGGGAATATCCTGGAAGGTGCTGTATCAGTTTATGACATTGCTGAAGGAGGAGCTGGAGATTGGTTTGGAGGCTTCCTATTTACTACTGGACAACAAGCTAATGAAGCTGTTCAAGACCAGTTATCAGCCCTCAGTTTCTCCAGTTTGGCAGTTATTTTTGGTGCTGGGCTTGTTACTAGCCTTTCTCCTTGTACTCTTAGCGTTCTACCACTGACCCTTGGTTACATAGGAGCATTTGGTTCAGGGAAAAGCAGGGCACAGGTTATTGGGGATTCAATTGCGTTCTCATTAGGATTGGCAACTACACTTGCACTCTTAGGCATTGCAGCCTCATTTGCTGGAAAGGCATATGGACAGACAGGGCAGGGATTACCAGTGGCTGCTTCAGGTTTAGCTATTGTTATGGGCTTGAATCTCCTTGAGATAATTGAACTACAGCTGCCATCCTTTTTTGACAACTTTGATCCCCGGGCTGCTGCTGCTAATTTTCCATCAAGTGTGCAAGCTTATCTAGCTGGACTTACATTTGCTTTAGCGGCCTCTCCATGCAGTACGCCAGTGCTGGCCACTCTGCTAGGATATGTTGCTACGTCCAAGGATCCATTTATTGGAGGCAGCCTACTTTTGACGTACACAACTGGTTATGTTGCTCCTCTACTTCTCGCTGCATCTTTTGCTGGAGCATTGCAGAGCCTGCTTTCTTTTCGCAAATTTTCAGCATGGATCAACCCAATCAGTGGTGCCCTTCTATTGGGAGGGGGAGTGTATACTTTCTTGGATCGGCTTTTCCCAGCTACTACAATGGCAATGTAG

Protein Analysis

277

Amino Acids

28.16

Weight (kDa)

4.59

Isoelectric Point (pI)

30.94

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DsbD_TM PF02683 55 - 236 7.6e-24 Cytochrome C biogenesis protein transmembrane 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: OG0012312)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G54290 AT5G54290
fragaria_vesca FvH4_3g20940 FvH4_3g20940 FvH4_3g20940
malus_domestica MD11G1237300.v1.1
prunus_persica Prupe.4G189900_v2.0.a1 Prupe.4G189900_v2.0.a1
pyrus_communis pycom11g20860
rosa_chinensis RchiOBHm_Chr5g0035361
rosa_laevigata RLG00000033620
rosa_multiflora Rmu_co8507677.1_g000001
rosa_roxburghii Rroxscaffold_1G00045040
rosa_rugosa Rorug05G0151400
rosa_samantha Rh5AG244600 Rh5BG244100 Rh5CG275900 Rh5DG253200
rosa_wichuraiana Rw5G022340

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 761
AccB7I CCANNNNNTGG 2 cut(s) 629, 758
AccI GTMKAC 1 cut(s) 788
AciI CCGC 1 cut(s) 557
AclWI GGATC 5 cut(s) 479, 614, 627, 752, 807
AcoI YGGCCR 1 cut(s) 585
AcsI RAATTY 1 cut(s) 731
AcuI CTGAAG 2 cut(s) 84, 390
AfaI GTAC 3 cut(s) 214, 574, 653
AfiI CCNNNNNNNGG 3 cut(s) 629, 758, 772
AgsI TTSAA 4 cut(s) 134, 297, 433, 452
AjnI CCWGG 1 cut(s) 30
AluBI AGCT 8 cut(s) 74, 119, 128, 416, 460, 527, 536, 815
AluI AGCT 8 cut(s) 74, 119, 128, 416, 460, 527, 536, 815
AlwI GGATC 5 cut(s) 479, 614, 627, 752, 807
AlwNI CAGNNNCTG 2 cut(s) 401, 715
Ama87I CYCGRG 1 cut(s) 489
AoxI GGCC 2 cut(s) 558, 585
ApeKI GCWGC 8 cut(s) 347, 401, 460, 494, 497, 500, 636, 686
ApoI RAATTY 1 cut(s) 731
Asp700I GAANNNNTTC 1 cut(s) 129
AsuC2I CCSGG 2 cut(s) 490, 491
AvaI CYCGRG 1 cut(s) 489
BaeGI GKGCMC 2 cut(s) 280, 766
BalI TGGCCA 1 cut(s) 587
BamHI GGATCC 1 cut(s) 619
BanI GGYRCC 1 cut(s) 761
BbvI GCAGC 8 cut(s) 359, 388, 447, 481, 484, 487, 648, 673
BccI CCATC 2 cut(s) 472, 520
BciT130I CCWGG 1 cut(s) 32
BcnI CCSGG 2 cut(s) 490, 491
BfaI CTAG 3 cut(s) 198, 533, 596
BfmI CTRYAG 1 cut(s) 455
BisI GCNGC 9 cut(s) 348, 402, 461, 495, 498, 501, 558, 637, 687
BlsI GCNGC 9 cut(s) 349, 403, 462, 496, 499, 502, 559, 638, 688
Bme1390I CCNGG 3 cut(s) 32, 490, 491
BmeT110I CYCGRG 1 cut(s) 489
BmiI GGNNCC 2 cut(s) 621, 763
BmrFI CCNGG 3 cut(s) 32, 490, 491
BmsI GCATC 1 cut(s) 698
BpmI CTGGAG 3 cut(s) 96, 145, 720
BpuEI CTTGAG 1 cut(s) 461
BpuMI CCSGG 2 cut(s) 490, 491
BsaJI CCNNGG 4 cut(s) 238, 488, 489, 615
BsaXI ACNNNNNCTCC 2 cut(s) 768, 798
Bsc4I CCNNNNNNNGG 3 cut(s) 629, 758, 772
Bse1I ACTGG 6 cut(s) 112, 139, 162, 395, 578, 664
Bse3DI GCAATG 4 cut(s) 57, 342, 704, 834
BseBI CCWGG 1 cut(s) 32
BseDI CCNNGG 4 cut(s) 238, 488, 489, 615
BseGI GGATG 1 cut(s) 464
BseLI CCNNNNNNNGG 3 cut(s) 629, 758, 772
BseMI GCAATG 4 cut(s) 57, 342, 704, 834
BseMII CTCAG 1 cut(s) 166
BseNI ACTGG 6 cut(s) 112, 139, 162, 395, 578, 664
BseRI GAGGAG 2 cut(s) 84, 663
BseSI GKGCMC 2 cut(s) 280, 766
BseXI GCAGC 8 cut(s) 359, 388, 447, 481, 484, 487, 648, 673
BseYI CCCAGC 2 cut(s) 185, 811
BshFI GGCC 2 cut(s) 560, 587
BshNI GGYRCC 1 cut(s) 761
BsiHKCI CYCGRG 1 cut(s) 489
BsiSI CCGG 1 cut(s) 490
BslI CCNNNNNNNGG 3 cut(s) 629, 758, 772
BsnI GGCC 2 cut(s) 560, 587
BsoBI CYCGRG 1 cut(s) 489
Bsp1286I GDGCHC 2 cut(s) 280, 766
Bsp143I GATC 4 cut(s) 484, 619, 744, 799
BspACI CCGC 1 cut(s) 557
BspANI GGCC 2 cut(s) 560, 587
BspCNI CTCAG 1 cut(s) 165
BspLI GGNNCC 2 cut(s) 621, 763
BspPI GGATC 5 cut(s) 479, 614, 627, 752, 807
BspT107I GGYRCC 1 cut(s) 761
BsrDI GCAATG 4 cut(s) 57, 342, 704, 834
BsrI ACTGG 6 cut(s) 112, 139, 162, 395, 578, 664
BssECI CCNNGG 4 cut(s) 238, 488, 489, 615
BssMI GATC 4 cut(s) 484, 619, 744, 799
BssNAI GTATAC 1 cut(s) 789
BssT1I CCWWGG 2 cut(s) 238, 615
Bst1107I GTATAC 1 cut(s) 789
Bst2UI CCWGG 1 cut(s) 32
BstAPI GCANNNNNTGC 2 cut(s) 695, 715
BstC8I GCNNGC 3 cut(s) 525, 585, 716
BstDEI CTNAG 3 cut(s) 152, 218, 337
BstF5I GGATG 1 cut(s) 464
BstKTI GATC 4 cut(s) 487, 622, 747, 802
BstMBI GATC 4 cut(s) 484, 619, 744, 799
BstMWI GCNNNNNNNGC 8 cut(s) 125, 356, 365, 500, 533, 557, 695, 715
BstNI CCWGG 1 cut(s) 32
BstSCI CCNGG 3 cut(s) 30, 488, 489
BstSFI CTRYAG 1 cut(s) 455
BstSLI GKGCMC 2 cut(s) 280, 766
BstV1I GCAGC 8 cut(s) 359, 388, 447, 481, 484, 487, 648, 673
BstX2I RGATCY 1 cut(s) 619
BstYI RGATCY 1 cut(s) 619
BstZ17I GTATAC 1 cut(s) 789
BsuRI GGCC 2 cut(s) 560, 587
BtsCI GGATG 1 cut(s) 464
BtsIMutI CAGTG 4 cut(s) 230, 402, 585, 763
Cac8I GCNNGC 3 cut(s) 525, 585, 716
CaiI CAGNNNCTG 2 cut(s) 401, 715
Cfr9I CCCGGG 1 cut(s) 489
Csp6I GTAC 3 cut(s) 213, 573, 652
CviAII CATG 2 cut(s) 567, 741
CviQI GTAC 3 cut(s) 213, 573, 652
DdeI CTNAG 3 cut(s) 152, 218, 337
DpnI GATC 4 cut(s) 486, 621, 746, 801
DpnII GATC 4 cut(s) 484, 619, 744, 799
EaeI YGGCCR 1 cut(s) 585
Eco130I CCWWGG 2 cut(s) 238, 615
Eco57I CTGAAG 2 cut(s) 84, 390
Eco88I CYCGRG 1 cut(s) 489
EcoRII CCWGG 1 cut(s) 30
EcoT14I CCWWGG 2 cut(s) 238, 615
ErhI CCWWGG 2 cut(s) 238, 615
FaeI CATG 2 cut(s) 570, 744
FatI CATG 2 cut(s) 566, 740
FauNDI CATATG 1 cut(s) 370
FblI GTMKAC 1 cut(s) 788
Fnu4HI GCNGC 9 cut(s) 348, 402, 461, 495, 498, 501, 558, 637, 687
FokI GGATG 1 cut(s) 451
Fsp4HI GCNGC 9 cut(s) 348, 402, 461, 495, 498, 501, 558, 637, 687
FspBI CTAG 3 cut(s) 198, 533, 596
GluI GCNGC 9 cut(s) 348, 402, 461, 495, 498, 501, 558, 637, 687
GsaI CCCAGC 2 cut(s) 189, 815
GsuI CTGGAG 3 cut(s) 96, 145, 720
HaeIII GGCC 2 cut(s) 560, 587
HapII CCGG 1 cut(s) 490
Hin1II CATG 2 cut(s) 570, 744
HindIII AAGCTT 1 cut(s) 525
HinfI GANTC 2 cut(s) 293, 433
HpaII CCGG 1 cut(s) 490
Hpy166II GTNNAC 2 cut(s) 654, 789
Hpy188III TCNNGA 1 cut(s) 134
Hpy8I GTNNAC 2 cut(s) 654, 789
HpyAV CCTTC 3 cut(s) 29, 59, 776
HpyCH4IV ACGT 2 cut(s) 611, 650
HpyCH4V TGCA 6 cut(s) 332, 347, 523, 570, 689, 709
HpyF10VI GCNNNNNNNGC 8 cut(s) 125, 356, 365, 500, 533, 557, 695, 715
HpyF3I CTNAG 3 cut(s) 152, 218, 337
HpySE526I ACGT 2 cut(s) 611, 650
Hsp92II CATG 2 cut(s) 570, 744
Kzo9I GATC 4 cut(s) 484, 619, 744, 799
LmnI GCTCC 4 cut(s) 71, 251, 676, 701
Lsp1109I GCAGC 8 cut(s) 359, 388, 447, 481, 484, 487, 648, 673
LweI GCATC 1 cut(s) 698
MaeI CTAG 3 cut(s) 198, 533, 596
MaeII ACGT 2 cut(s) 611, 650
MaeIII GTNAC 3 cut(s) 13, 193, 242
MalI GATC 4 cut(s) 486, 621, 746, 801
MboI GATC 4 cut(s) 484, 619, 744, 799
MfeI CAATTG 1 cut(s) 297
MflI RGATCY 1 cut(s) 619
MhlI GDGCHC 2 cut(s) 280, 766
MlsI TGGCCA 1 cut(s) 587
MluCI AATT 4 cut(s) 297, 447, 505, 731
MluNI TGGCCA 1 cut(s) 587
MnlI CCTC 8 cut(s) 62, 83, 161, 361, 571, 626, 684, 770
Mox20I TGGCCA 1 cut(s) 587
MroXI GAANNNNTTC 1 cut(s) 129
MscI TGGCCA 1 cut(s) 587
Msp20I TGGCCA 1 cut(s) 587
MspA1I CMGCKG 1 cut(s) 460
MspI CCGG 1 cut(s) 490
MspR9I CCNGG 3 cut(s) 32, 490, 491
MunI CAATTG 1 cut(s) 297
MvaI CCWGG 1 cut(s) 32
MwoI GCNNNNNNNGC 8 cut(s) 125, 356, 365, 500, 533, 557, 695, 715
NciI CCSGG 2 cut(s) 490, 491
NdeI CATATG 1 cut(s) 370
NdeII GATC 4 cut(s) 484, 619, 744, 799
NlaIII CATG 2 cut(s) 570, 744
NlaIV GGNNCC 2 cut(s) 621, 763
PdmI GAANNNNTTC 1 cut(s) 129
PfeI GAWTC 2 cut(s) 293, 433
PflMI CCANNNNNTGG 2 cut(s) 629, 758
PfoI TCCNGGA 1 cut(s) 30
PkrI GCNGC 9 cut(s) 349, 403, 462, 496, 499, 502, 559, 638, 688
Psp6I CCWGG 1 cut(s) 30
PspFI CCCAGC 2 cut(s) 185, 811
PspGI CCWGG 1 cut(s) 30
PspN4I GGNNCC 2 cut(s) 621, 763
PstNI CAGNNNCTG 2 cut(s) 401, 715
PsuI RGATCY 1 cut(s) 619
PvuII CAGCTG 1 cut(s) 460
RsaI GTAC 3 cut(s) 214, 574, 653
RsaNI GTAC 3 cut(s) 213, 573, 652
SatI GCNGC 9 cut(s) 348, 402, 461, 495, 498, 501, 558, 637, 687
Sau3AI GATC 4 cut(s) 484, 619, 744, 799
ScrFI CCNGG 3 cut(s) 32, 490, 491
SduI GDGCHC 2 cut(s) 280, 766
SfaNI GCATC 1 cut(s) 698
SfcI CTRYAG 1 cut(s) 455
SmaI CCCGGG 1 cut(s) 491
SmlI CTYRAG 1 cut(s) 440
SmoI CTYRAG 1 cut(s) 440
Sse9I AATT 4 cut(s) 297, 447, 505, 731
SsiI CCGC 1 cut(s) 557
SspMI CTAG 3 cut(s) 198, 533, 596
StyD4I CCNGG 3 cut(s) 30, 488, 489
StyI CCWWGG 2 cut(s) 238, 615
TaiI ACGT 2 cut(s) 614, 653
TasI AATT 4 cut(s) 297, 447, 505, 731
TatI WGTACW 1 cut(s) 212
TauI GCSGC 1 cut(s) 560
TfiI GAWTC 2 cut(s) 293, 433
TscAI CASTG 4 cut(s) 237, 402, 585, 763
TseI GCWGC 8 cut(s) 347, 401, 460, 494, 497, 500, 636, 686
TspDTI ATGAA 1 cut(s) 138
TspMI CCCGGG 1 cut(s) 489
TspRI CASTG 4 cut(s) 237, 402, 585, 763
Van91I CCANNNNNTGG 2 cut(s) 629, 758
XapI RAATTY 1 cut(s) 731
XmaI CCCGGG 1 cut(s) 489
XmiI GTMKAC 1 cut(s) 788
XmnI GAANNNNTTC 1 cut(s) 129
XspI CTAG 3 cut(s) 198, 533, 596
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.