Rroxscaffold_2G00137230

Carbon catabolite repressor protein 4 homolog

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000002
OG0017578
Physical Location & Seq
Forward (+)
74948584 .. 74953126
4543 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_2G00137230.1

Sequence Viewer

Length: 1344 bp
ATGGAAAACCCCATCAAGCTTCTCCGATTTCATCCGAAATCCCCAGTTGTAGGATGCAAGATTCATGCATCAGTTGATTTTAAGGATGATAAAGAATCTCCCGAATTGAAGCATGTTTGGTATCGGGAGAATGGAGAAAGGGAGCTGTTGGAGGTCACAGAGTTTTATACTCCCACGCCACAAGATGTTGGACTTAGCCTTGAGCTTGAAGTAATTGGGGCAGGTGTTTCAAACAATTTTTCTACGACCCCTGTGCTTGATTACCCTGTGATTCATCCTCGTCAGATGATCAGATATGGCTCATCAGCTGCTGATGTGCAAGAAATGGATACATTCACAGTGCTGACATATAATCTGATGACACATGTTCCTGGTTCTGCTTCGGAAGATCTTGTGTGGGCTGCATCGTGGCATTATCGGCAGAAGAGATTAGTAGATGAGATAACAGGATATCGTGCTGATATCCTTTGTCTTCAAGAAATCTATCAGAATGACTTCTGTACATGGTTTGAGCCGGAGCTACTGAAATTTGGATATGCAGGAATATTCAAGAAGAGATCTAATCCTAATTTGCCGGATGGATGTGCGACCTTTTATTTGAATAACCGATTTCGAAACCTAAATACATATGAGATTGAATTTGACACACTGGCAGATGAGGTTGCAAAGAAATTTGGGACTCCACAGGAGACGGAGGAAGTTAAAATCCATCTTTCAACGGGGAATATAGCTATGTGTGTCCTTCTAGAAAAAATTGATGGCACTAATGGAAAACTTTGTGTGGCAAATACTCATATCTGCCCAATGTCTCATCAAAGAGGAGTATCCCTCTTTCAGATTGTCAGTTATGTACATGAGGTAGAAAAGTTTGCTGCTGATCCTAAGGTTCCTTTTATACTATGTGGAGATTTCAATGCTGATCCTGAAAGTGATGCTTATAAATTTGTAACTGAGGGGAAATTGGACTTGGAGGCACGTGACCGTAAATTCACTTATGTTCAAGTTAAGGGTTATTCTGATATAGAGAAGGCGGTATTCAAGCATTTGAAGCCGAAGCGTGGAACCTCCCTTGTAAGTGCTTATGCACATTTCTTCGGGTCTCTGCCTATTGGTAATCCTTATCGTCAGAAAAAGCATCAAACATGGGAGGAGCCTTGCTTCACATTTCTGAAATACCCCGTGGATAATGTGCTTGATTACATATTTTATACAGATGGTTCTCTACATCATAATGGAGTTCTTGAGCTTCCTAATCTCCGGAAGACTGATATTCTTCCTTCGATTCATTGGTCATCAGACCATATTGCCTTAATGGGGCAGTTTAGCTTTAAGGCGGAAGTTTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko03018 map03018
Pfam Domains
Protein Families
Exo_endo_phos zf-C6H2

Protein Analysis

447

Amino Acids

51.11

Weight (kDa)

5.73

Isoelectric Point (pI)

32.04

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Exo_endo_phos PF03372 131 - 434 4.6e-19 Endonuclease/Exonuclease/phosphatase family
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: OG0017578)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g16490
rosa_chinensis RchiOBHm_Chr2g0106371 RchiOBHm_Chr2g0106391
rosa_laevigata RLG00000017493 RLG00000017495
rosa_roxburghii Rroxscaffold_2G00137230
rosa_rugosa Rorug02G0135100
rosa_samantha Rh2AG186200 Rh2AG186300 Rh2CG191200 Rh2DG192300 Rh2DG192400

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 939
AarI CACCTGC 1 cut(s) 212
Acc36I ACCTGC 1 cut(s) 212
AccIII TCCGGA 1 cut(s) 1257
AciI CCGC 2 cut(s) 1031, 1334
AclWI GGATC 2 cut(s) 872, 914
AcsI RAATTY 5 cut(s) 527, 638, 671, 941, 986
AcvI CACGTG 1 cut(s) 977
AfaI GTAC 2 cut(s) 502, 852
AfiI CCNNNNNNNGG 3 cut(s) 50, 1058, 1314
AflIII ACRYGT 1 cut(s) 364
AjnI CCWGG 1 cut(s) 370
AjuI GAANNNNNNNTTGG 2 cut(s) 950, 982
AluBI AGCT 8 cut(s) 19, 145, 205, 308, 520, 731, 1246, 1326
AluI AGCT 8 cut(s) 19, 145, 205, 308, 520, 731, 1246, 1326
Alw26I GTCTC 3 cut(s) 683, 813, 1104
AlwI GGATC 2 cut(s) 872, 914
AlwNI CAGNNNCTG 1 cut(s) 311
Aor13HI TCCGGA 1 cut(s) 1257
ApeKI GCWGC 3 cut(s) 308, 401, 872
ApoI RAATTY 5 cut(s) 527, 638, 671, 941, 986
ArsI GACNNNNNNTTYG 2 cut(s) 580, 612
Asp700I GAANNNNTTC 1 cut(s) 494
AsuII TTCGAA 1 cut(s) 613
AxyI CCTNAGG 1 cut(s) 882
BbrPI CACGTG 1 cut(s) 977
BbsI GAAGAC 2 cut(s) 464, 1268
BbvI GCAGC 3 cut(s) 295, 388, 859
BccI CCATC 5 cut(s) 20, 572, 717, 752, 1208
BcgI CGANNNNNNTGC 2 cut(s) 235, 269
BciT130I CCWGG 1 cut(s) 372
BciVI GTATCC 2 cut(s) 322, 835
BclI TGATCA 1 cut(s) 288
BcoDI GTCTC 3 cut(s) 683, 813, 1104
BfaI CTAG 1 cut(s) 746
BfuAI ACCTGC 1 cut(s) 212
BfuI GTATCC 2 cut(s) 322, 835
BglII AGATCT 2 cut(s) 388, 557
BisI GCNGC 3 cut(s) 309, 402, 873
BlsI GCNGC 3 cut(s) 310, 403, 874
Bme1390I CCNGG 1 cut(s) 372
BmiI GGNNCC 3 cut(s) 888, 1063, 1152
BmrFI CCNGG 1 cut(s) 372
BmrI ACTGGG 1 cut(s) 38
BmsI GCATC 5 cut(s) 44, 77, 413, 922, 1144
BmuI ACTGGG 1 cut(s) 38
BpiI GAAGAC 2 cut(s) 464, 1268
BplI GAGNNNNNCTC 2 cut(s) 813, 845
Bpu14I TTCGAA 1 cut(s) 613
BpuEI CTTGAG 2 cut(s) 221, 1262
BsaAI YACGTR 1 cut(s) 977
BsaI GGTCTC 1 cut(s) 1104
BsaJI CCNNGG 1 cut(s) 1179
BsaWI WCCGGW 1 cut(s) 1257
Bsc4I CCNNNNNNNGG 3 cut(s) 50, 1058, 1314
Bse1I ACTGG 2 cut(s) 44, 654
Bse21I CCTNAGG 1 cut(s) 882
BseAI TCCGGA 1 cut(s) 1257
BseBI CCWGG 1 cut(s) 372
BseDI CCNNGG 1 cut(s) 1179
BseGI GGATG 6 cut(s) 31, 59, 91, 274, 583, 587
BseLI CCNNNNNNNGG 3 cut(s) 50, 1058, 1314
BseMII CTCAG 1 cut(s) 942
BseNI ACTGG 2 cut(s) 44, 654
BseRI GAGGAG 2 cut(s) 834, 1163
BseXI GCAGC 3 cut(s) 295, 388, 859
BsiSI CCGG 3 cut(s) 515, 575, 1258
BslFI GGGAC 1 cut(s) 691
BslI CCNNNNNNNGG 3 cut(s) 50, 1058, 1314
BsmAI GTCTC 3 cut(s) 683, 813, 1104
BsmBI CGTCTC 1 cut(s) 683
BsmFI GGGAC 1 cut(s) 691
Bso31I GGTCTC 1 cut(s) 1104
Bsp119I TTCGAA 1 cut(s) 613
Bsp13I TCCGGA 1 cut(s) 1257
Bsp1407I TGTACA 2 cut(s) 500, 850
Bsp143I GATC 5 cut(s) 288, 388, 557, 877, 919
BspACI CCGC 2 cut(s) 1031, 1334
BspCNI CTCAG 1 cut(s) 943
BspEI TCCGGA 1 cut(s) 1257
BspLI GGNNCC 3 cut(s) 888, 1063, 1152
BspMI ACCTGC 1 cut(s) 212
BspPI GGATC 2 cut(s) 872, 914
BspT104I TTCGAA 1 cut(s) 613
BspTNI GGTCTC 1 cut(s) 1104
BsrGI TGTACA 2 cut(s) 500, 850
BsrI ACTGG 2 cut(s) 44, 654
BssECI CCNNGG 1 cut(s) 1179
BssMI GATC 5 cut(s) 288, 388, 557, 877, 919
Bst2UI CCWGG 1 cut(s) 372
Bst4CI ACNGT 2 cut(s) 340, 983
Bst6I CTCTTC 2 cut(s) 419, 548
BstAUI TGTACA 2 cut(s) 500, 850
BstBAI YACGTR 1 cut(s) 977
BstBI TTCGAA 1 cut(s) 613
BstDEI CTNAG 3 cut(s) 194, 882, 951
BstDSI CCRYGG 1 cut(s) 1179
BstF5I GGATG 6 cut(s) 31, 59, 91, 274, 583, 587
BstKTI GATC 5 cut(s) 291, 391, 560, 880, 922
BstMAI GTCTC 3 cut(s) 683, 813, 1104
BstMBI GATC 5 cut(s) 288, 388, 557, 877, 919
BstMWI GCNNNNNNNGC 2 cut(s) 418, 1048
BstNI CCWGG 1 cut(s) 372
BstNSI RCATGY 2 cut(s) 116, 368
BstSCI CCNGG 1 cut(s) 370
BstV1I GCAGC 3 cut(s) 295, 388, 859
BstV2I GAAGAC 2 cut(s) 464, 1268
BstX2I RGATCY 2 cut(s) 388, 557
BstYI RGATCY 2 cut(s) 388, 557
Bsu36I CCTNAGG 1 cut(s) 882
BsuI GTATCC 2 cut(s) 322, 835
BtgI CCRYGG 1 cut(s) 1179
BtsCI GGATG 6 cut(s) 31, 59, 91, 274, 583, 587
BtsIMutI CAGTG 2 cut(s) 345, 647
BveI ACCTGC 1 cut(s) 212
CaiI CAGNNNCTG 1 cut(s) 311
Csp6I GTAC 2 cut(s) 501, 851
CviAII CATG 6 cut(s) 65, 113, 365, 504, 854, 1143
CviQI GTAC 2 cut(s) 501, 851
DdeI CTNAG 3 cut(s) 194, 882, 951
DpnI GATC 5 cut(s) 290, 390, 559, 879, 921
DpnII GATC 5 cut(s) 288, 388, 557, 877, 919
Eam1104I CTCTTC 2 cut(s) 419, 548
EarI CTCTTC 2 cut(s) 419, 548
Eco31I GGTCTC 1 cut(s) 1104
Eco32I GATATC 2 cut(s) 452, 463
Eco72I CACGTG 1 cut(s) 977
Eco81I CCTNAGG 1 cut(s) 882
EcoRII CCWGG 1 cut(s) 370
EcoRV GATATC 2 cut(s) 452, 463
EcoT22I ATGCAT 1 cut(s) 70
Esp3I CGTCTC 1 cut(s) 683
FaeI CATG 6 cut(s) 68, 116, 368, 507, 857, 1146
FalI AAGNNNNNCTT 2 cut(s) 919, 951
FaqI GGGAC 1 cut(s) 691
FatI CATG 6 cut(s) 64, 112, 364, 503, 853, 1142
FauNDI CATATG 1 cut(s) 628
FbaI TGATCA 1 cut(s) 288
Fnu4HI GCNGC 3 cut(s) 309, 402, 873
FokI GGATG 6 cut(s) 18, 66, 98, 261, 590, 594
Fsp4HI GCNGC 3 cut(s) 309, 402, 873
FspBI CTAG 1 cut(s) 746
GluI GCNGC 3 cut(s) 309, 402, 873
HapII CCGG 3 cut(s) 515, 575, 1258
Hin1II CATG 6 cut(s) 68, 116, 368, 507, 857, 1146
HindIII AAGCTT 1 cut(s) 17
HinfI GANTC 5 cut(s) 61, 95, 271, 679, 1282
HpaII CCGG 3 cut(s) 515, 575, 1258
Hpy188III TCNNGA 8 cut(s) 101, 125, 476, 550, 746, 923, 1241, 1258
HpyAV CCTTC 3 cut(s) 752, 1021, 1287
HpyCH4III ACNGT 2 cut(s) 340, 983
HpyCH4IV ACGT 1 cut(s) 976
HpyCH4V TGCA 7 cut(s) 57, 68, 319, 404, 539, 665, 1085
HpyF10VI GCNNNNNNNGC 2 cut(s) 418, 1048
HpyF3I CTNAG 3 cut(s) 194, 882, 951
HpySE526I ACGT 1 cut(s) 976
Hsp92II CATG 6 cut(s) 68, 116, 368, 507, 857, 1146
Kpn2I TCCGGA 1 cut(s) 1257
Ksp22I TGATCA 1 cut(s) 288
Kzo9I GATC 5 cut(s) 288, 388, 557, 877, 919
LmnI GCTCC 3 cut(s) 142, 517, 1150
Lsp1109I GCAGC 3 cut(s) 295, 388, 859
LweI GCATC 5 cut(s) 44, 77, 413, 922, 1144
MaeI CTAG 1 cut(s) 746
MaeII ACGT 1 cut(s) 976
MaeIII GTNAC 3 cut(s) 154, 946, 977
MalI GATC 5 cut(s) 290, 390, 559, 879, 921
MboI GATC 5 cut(s) 288, 388, 557, 877, 919
MboII GAAGA 7 cut(s) 398, 436, 464, 565, 1084, 1265, 1273
MflI RGATCY 2 cut(s) 388, 557
MlyI GAGTC 1 cut(s) 673
MmeI TCCRAC 2 cut(s) 129, 169
Mph1103I ATGCAT 1 cut(s) 70
MroI TCCGGA 1 cut(s) 1257
MroXI GAANNNNTTC 1 cut(s) 494
MseI TTAA 5 cut(s) 81, 702, 1005, 1310, 1329
MslI CAYNNNNRTG 1 cut(s) 1230
MspA1I CMGCKG 1 cut(s) 308
MspI CCGG 3 cut(s) 515, 575, 1258
MspR9I CCNGG 1 cut(s) 372
MvaI CCWGG 1 cut(s) 372
MwoI GCNNNNNNNGC 2 cut(s) 418, 1048
NdeI CATATG 1 cut(s) 628
NdeII GATC 5 cut(s) 288, 388, 557, 877, 919
NlaIII CATG 6 cut(s) 68, 116, 368, 507, 857, 1146
NlaIV GGNNCC 3 cut(s) 888, 1063, 1152
NmuCI GTSAC 2 cut(s) 154, 977
NsiI ATGCAT 1 cut(s) 70
NspI RCATGY 2 cut(s) 116, 368
NspV TTCGAA 1 cut(s) 613
PaqCI CACCTGC 1 cut(s) 212
PciI ACATGT 1 cut(s) 364
PdmI GAANNNNTTC 1 cut(s) 494
PfeI GAWTC 4 cut(s) 61, 95, 271, 1282
PkrI GCNGC 3 cut(s) 310, 403, 874
PleI GAGTC 1 cut(s) 673
PmaCI CACGTG 1 cut(s) 977
PmlI CACGTG 1 cut(s) 977
PpsI GAGTC 1 cut(s) 673
Ppu21I YACGTR 1 cut(s) 977
PscI ACATGT 1 cut(s) 364
PsiI TTATAA 1 cut(s) 939
Psp6I CCWGG 1 cut(s) 370
PspCI CACGTG 1 cut(s) 977
PspGI CCWGG 1 cut(s) 370
PspN4I GGNNCC 3 cut(s) 888, 1063, 1152
PstNI CAGNNNCTG 1 cut(s) 311
PsuI RGATCY 2 cut(s) 388, 557
PvuII CAGCTG 1 cut(s) 308
RsaI GTAC 2 cut(s) 502, 852
RsaNI GTAC 2 cut(s) 501, 851
RseI CAYNNNNRTG 1 cut(s) 1230
SaqAI TTAA 5 cut(s) 81, 702, 1005, 1310, 1329
SatI GCNGC 3 cut(s) 309, 402, 873
Sau3AI GATC 5 cut(s) 288, 388, 557, 877, 919
SchI GAGTC 1 cut(s) 673
ScrFI CCNGG 1 cut(s) 372
SfaNI GCATC 5 cut(s) 44, 77, 413, 922, 1144
SfuI TTCGAA 1 cut(s) 613
SmiMI CAYNNNNRTG 1 cut(s) 1230
SmlI CTYRAG 2 cut(s) 200, 1241
SmoI CTYRAG 2 cut(s) 200, 1241
SsiI CCGC 2 cut(s) 1031, 1334
SspI AATATT 1 cut(s) 546
SspMI CTAG 1 cut(s) 746
StyD4I CCNGG 1 cut(s) 370
TaaI ACNGT 2 cut(s) 340, 983
TaiI ACGT 1 cut(s) 979
TaqI TCGA 2 cut(s) 613, 1280
TatI WGTACW 2 cut(s) 500, 850
TfiI GAWTC 4 cut(s) 61, 95, 271, 1282
Tru1I TTAA 5 cut(s) 81, 702, 1005, 1310, 1329
Tru9I TTAA 5 cut(s) 81, 702, 1005, 1310, 1329
TscAI CASTG 2 cut(s) 345, 654
TseFI GTSAC 2 cut(s) 154, 977
TseI GCWGC 3 cut(s) 308, 401, 872
Tsp45I GTSAC 2 cut(s) 154, 977
TspDTI ATGAA 4 cut(s) 20, 53, 263, 1274
TspGWI ACGGA 1 cut(s) 707
TspRI CASTG 2 cut(s) 345, 654
XapI RAATTY 5 cut(s) 527, 638, 671, 941, 986
XbaI TCTAGA 1 cut(s) 745
XceI RCATGY 2 cut(s) 116, 368
XmnI GAANNNNTTC 1 cut(s) 494
XspI CTAG 1 cut(s) 746
Zsp2I ATGCAT 1 cut(s) 70
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.