RchiOBHm_Chr1g0377171

Cleavage and polyadenylation specificity factor subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
1
OG0015102
Physical Location & Seq
Forward (+)
64201615 .. 64204610
2996 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ60075

Sequence Viewer

Length: 603 bp
ATGGTGACGTCGGCGGTGGTCAACACCTATCCACTGTCCAGCTACACCTTCGGGACCAAAGAGCCCAAGATGGAGAAGGACACCTCCGTCGCCGATCGCCTCGCTCGCATGAAAGTCAACTATATGAAAGAGGGGATGAGGACAAGCGTCGAAGCTATTTTACTGGTACAGGAACATAATCATCCCCACATACTGCTTCTGCAGATTGGAAACACGTTCTGCAAACTTCCTGGTGGACGACTGAAGCCTGGGGAGAATGAGATTGAGGGGCTGAAAAGAAAGCTCACCAGCAAACTTGGTGCTAATTCAGCAAACCTTGTCCCTGATTGGCAGATAGGAGAATGCGTCGCTATCTGGTGGAGGCCAAACTTTGAAACCATAATGTATCCATATTGCCCTCCTCACATAACAAAACCAAAGGAGTGCAAGAAGCTTTTCCTTGTTCACTTATCTGAGAGGGAGTACTTTGCTGTGCCAAAGAACCTAAAACTCCTTGCTGTTCCGTTGTTTGAACTCTATGACAATGTTCAGAGATATGGGCCTGTTATATCTACAATTCCTCAGCAGCTTTCCAGATTCCAATTCAACATGATCAGTTCATGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0002682 GO:0002684 GO:0003674 GO:0003676 GO:0003682 GO:0003723 GO:0003729 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005737 GO:0005849 GO:0006139 GO:0006396 GO:0006397 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009893 GO:0009987 GO:0010467 GO:0010468 GO:0010604 GO:0010608 GO:0010628 GO:0016043 GO:0016070 GO:0016071 GO:0016604 GO:0017091 GO:0019219 GO:0019222 GO:0022607 GO:0022613 GO:0022618 GO:0031323 GO:0031325 GO:0031437 GO:0031439 GO:0031440 GO:0031442 GO:0031974 GO:0031981 GO:0032991 GO:0034622 GO:0034641 GO:0042382 GO:0042802 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0043933 GO:0044085 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044464 GO:0045595 GO:0045597 GO:0045935 GO:0046483 GO:0048518 GO:0048522 GO:0050684 GO:0050685 GO:0050789 GO:0050793 GO:0050794 GO:0051094 GO:0051171 GO:0051173 GO:0051239 GO:0051240 GO:0051252 GO:0051254 GO:0051259 GO:0051262 GO:0051290 GO:0051291 GO:0060255 GO:0065003 GO:0065007 GO:0070013 GO:0071704 GO:0071826 GO:0071840 GO:0080090 GO:0090304 GO:0097159 GO:0110104 GO:1900363 GO:1900365 GO:1901360 GO:1901363 GO:1901532 GO:1901534 GO:1903311 GO:1903313 GO:1903706 GO:1903708 GO:1905456 GO:1905458 GO:1990120 GO:2000026 GO:2000736 GO:2000738 GO:2000973 GO:2000975
KEGG Pathways
Metabolic & Signaling
ko03015 map03015
Pfam Domains
Protein Families
NUDIX_2

Protein Analysis

200

Amino Acids

22.9

Weight (kDa)

9.23

Isoelectric Point (pI)

39.38

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
NUDIX_2 PF13869 6 - 193 7.1e-86 Nucleotide hydrolase
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Orthologous Genes (Group: OG0015102)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G25550
fragaria_vesca FvH4_7g29390
malus_domestica MD01G1199900.v1.1 MD07G1267800.v1.1
prunus_persica Prupe.2G293500_v2.0.a1
pyrus_communis pycom07g24540
rosa_chinensis RchiOBHm_Chr1g0377171
rosa_laevigata RLG00000026539
rosa_multiflora Rmu_ssc0000155.1_g000015
rosa_roxburghii Rroxscaffold_4G00281410
rosa_rugosa Rorug01G0401800
rosa_samantha Rh1AG419200 Rh1BG378300 Rh1CG392300 Rh1DG409000
rosa_wichuraiana Rw1G036770

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 86
AatII GACGTC 1 cut(s) 11
AciI CCGC 1 cut(s) 14
AcuI CTGAAG 1 cut(s) 263
AcyI GRCGYC 1 cut(s) 8
AfaI GTAC 2 cut(s) 168, 464
AflIII ACRYGT 1 cut(s) 213
AgsI TTSAA 3 cut(s) 374, 512, 586
AjnI CCWGG 2 cut(s) 229, 247
AluBI AGCT 5 cut(s) 42, 155, 283, 433, 568
AluI AGCT 5 cut(s) 42, 155, 283, 433, 568
AoxI GGCC 2 cut(s) 362, 539
ApeKI GCWGC 1 cut(s) 565
Asp700I GAANNNNTTC 1 cut(s) 434
AspS9I GGNCC 2 cut(s) 54, 539
AsuHPI GGTGA 2 cut(s) 16, 277
AvaII GGWCC 1 cut(s) 54
BanII GRGCYC 1 cut(s) 66
BarI GAAGNNNNNNTAC 2 cut(s) 144, 176
BbvCI CCTCAGC 1 cut(s) 561
BbvI GCAGC 1 cut(s) 577
BccI CCATC 1 cut(s) 64
BciT130I CCWGG 2 cut(s) 231, 249
BciVI GTATCC 1 cut(s) 396
BclI TGATCA 1 cut(s) 591
BfmI CTRYAG 1 cut(s) 200
BfuI GTATCC 1 cut(s) 396
BisI GCNGC 1 cut(s) 566
BlsI GCNGC 1 cut(s) 567
BmcAI AGTACT 1 cut(s) 464
Bme1390I CCNGG 2 cut(s) 231, 249
Bme18I GGWCC 1 cut(s) 54
BmgT120I GGNCC 2 cut(s) 54, 539
BmiI GGNNCC 1 cut(s) 55
BmrFI CCNGG 2 cut(s) 231, 249
BoxI GACNNNNGTC 1 cut(s) 146
Bpu10I CCTNAGC 1 cut(s) 561
BsaHI GRCGYC 1 cut(s) 8
BsaJI CCNNGG 1 cut(s) 248
BsaXI ACNNNNNCTCC 2 cut(s) 330, 360
Bse1I ACTGG 1 cut(s) 168
BseBI CCWGG 2 cut(s) 231, 249
BseDI CCNNGG 1 cut(s) 248
BseGI GGATG 2 cut(s) 141, 181
BseMII CTCAG 2 cut(s) 444, 575
BseNI ACTGG 1 cut(s) 168
BseRI GAGGAG 1 cut(s) 390
BseXI GCAGC 1 cut(s) 577
Bsh1285I CGRYCG 1 cut(s) 97
BshFI GGCC 2 cut(s) 364, 541
BsiEI CGRYCG 1 cut(s) 97
BslFI GGGAC 2 cut(s) 67, 305
BsmFI GGGAC 2 cut(s) 67, 305
BsmI GAATGC 1 cut(s) 347
BsnI GGCC 2 cut(s) 364, 541
Bsp1286I GDGCHC 1 cut(s) 66
Bsp143I GATC 2 cut(s) 94, 591
BspACI CCGC 1 cut(s) 14
BspANI GGCC 2 cut(s) 364, 541
BspCNI CTCAG 2 cut(s) 445, 574
BspHI TCATGA 1 cut(s) 599
BspLI GGNNCC 1 cut(s) 55
BspMAI CTGCAG 1 cut(s) 204
BsrI ACTGG 1 cut(s) 168
BssECI CCNNGG 1 cut(s) 248
BssMI GATC 2 cut(s) 94, 591
BssNI GRCGYC 1 cut(s) 8
Bst2UI CCWGG 2 cut(s) 231, 249
Bst4CI ACNGT 1 cut(s) 36
BstACI GRCGYC 1 cut(s) 8
BstC8I GCNNGC 1 cut(s) 106
BstDEI CTNAG 2 cut(s) 453, 561
BstF5I GGATG 2 cut(s) 141, 181
BstKTI GATC 2 cut(s) 97, 594
BstMBI GATC 2 cut(s) 94, 591
BstMCI CGRYCG 1 cut(s) 97
BstMWI GCNNNNNNNGC 2 cut(s) 105, 308
BstNI CCWGG 2 cut(s) 231, 249
BstPAI GACNNNNGTC 1 cut(s) 146
BstSCI CCNGG 2 cut(s) 229, 247
BstSFI CTRYAG 1 cut(s) 200
BstV1I GCAGC 1 cut(s) 577
BsuI GTATCC 1 cut(s) 396
BsuRI GGCC 2 cut(s) 364, 541
BtsCI GGATG 2 cut(s) 141, 181
BtsIMutI CAGTG 1 cut(s) 32
Cac8I GCNNGC 1 cut(s) 106
CciI TCATGA 1 cut(s) 599
Cfr13I GGNCC 2 cut(s) 54, 539
CseI GACGC 2 cut(s) 136, 334
Csp6I GTAC 2 cut(s) 167, 463
CviAII CATG 3 cut(s) 109, 589, 600
CviQI GTAC 2 cut(s) 167, 463
DdeI CTNAG 2 cut(s) 453, 561
DpnI GATC 2 cut(s) 96, 593
DpnII GATC 2 cut(s) 94, 591
DrdI GACNNNNNNGTC 1 cut(s) 86
DseDI GACNNNNNNGTC 1 cut(s) 86
Eco24I GRGCYC 1 cut(s) 66
Eco47I GGWCC 1 cut(s) 54
Eco57I CTGAAG 1 cut(s) 263
EcoRII CCWGG 2 cut(s) 229, 247
EcoT38I GRGCYC 1 cut(s) 66
FaeI CATG 3 cut(s) 112, 592, 603
FaqI GGGAC 2 cut(s) 67, 305
FatI CATG 3 cut(s) 108, 588, 599
FbaI TGATCA 1 cut(s) 591
Fnu4HI GCNGC 1 cut(s) 566
FokI GGATG 2 cut(s) 148, 168
FriOI GRGCYC 1 cut(s) 66
Fsp4HI GCNGC 1 cut(s) 566
GluI GCNGC 1 cut(s) 566
HaeIII GGCC 2 cut(s) 364, 541
HgaI GACGC 2 cut(s) 136, 334
Hin1I GRCGYC 1 cut(s) 8
Hin1II CATG 3 cut(s) 112, 592, 603
HincII GTYRAC 2 cut(s) 22, 118
HindII GTYRAC 2 cut(s) 22, 118
HindIII AAGCTT 1 cut(s) 431
HinfI GANTC 1 cut(s) 576
HphI GGTGA 2 cut(s) 16, 277
Hpy166II GTNNAC 4 cut(s) 22, 118, 236, 445
Hpy188I TCNGA 2 cut(s) 454, 531
Hpy188III TCNNGA 3 cut(s) 52, 573, 600
Hpy8I GTNNAC 4 cut(s) 22, 118, 236, 445
Hpy99I CGWCG 4 cut(s) 13, 92, 152, 350
HpyAV CCTTC 2 cut(s) 58, 70
HpyCH4III ACNGT 1 cut(s) 36
HpyCH4IV ACGT 2 cut(s) 8, 215
HpyCH4V TGCA 3 cut(s) 202, 222, 426
HpyF10VI GCNNNNNNNGC 2 cut(s) 105, 308
HpyF3I CTNAG 2 cut(s) 453, 561
HpySE526I ACGT 2 cut(s) 8, 215
Hsp92I GRCGYC 1 cut(s) 8
Hsp92II CATG 3 cut(s) 112, 592, 603
Ksp22I TGATCA 1 cut(s) 591
Kzo9I GATC 2 cut(s) 94, 591
Lsp1109I GCAGC 1 cut(s) 577
MaeII ACGT 2 cut(s) 8, 215
MaeIII GTNAC 1 cut(s) 4
MalI GATC 2 cut(s) 96, 593
MboI GATC 2 cut(s) 94, 591
MhlI GDGCHC 1 cut(s) 66
MluCI AATT 3 cut(s) 304, 555, 581
MroXI GAANNNNTTC 1 cut(s) 434
MspR9I CCNGG 2 cut(s) 231, 249
Mva1269I GAATGC 1 cut(s) 347
MvaI CCWGG 2 cut(s) 231, 249
MwoI GCNNNNNNNGC 2 cut(s) 105, 308
NdeII GATC 2 cut(s) 94, 591
NlaIII CATG 3 cut(s) 112, 592, 603
NlaIV GGNNCC 1 cut(s) 55
NmuCI GTSAC 1 cut(s) 4
PagI TCATGA 1 cut(s) 599
PctI GAATGC 1 cut(s) 347
PdmI GAANNNNTTC 1 cut(s) 434
PfeI GAWTC 1 cut(s) 576
PkrI GCNGC 1 cut(s) 567
Ple19I CGATCG 1 cut(s) 97
PshAI GACNNNNGTC 1 cut(s) 146
Psp6I CCWGG 2 cut(s) 229, 247
PspGI CCWGG 2 cut(s) 229, 247
PspN4I GGNNCC 1 cut(s) 55
PspPI GGNCC 2 cut(s) 54, 539
PstI CTGCAG 1 cut(s) 204
PvuI CGATCG 1 cut(s) 97
RsaI GTAC 2 cut(s) 168, 464
RsaNI GTAC 2 cut(s) 167, 463
SatI GCNGC 1 cut(s) 566
Sau3AI GATC 2 cut(s) 94, 591
Sau96I GGNCC 2 cut(s) 54, 539
ScaI AGTACT 1 cut(s) 464
ScrFI CCNGG 2 cut(s) 231, 249
SduI GDGCHC 1 cut(s) 66
SfcI CTRYAG 1 cut(s) 200
SinI GGWCC 1 cut(s) 54
Sse9I AATT 3 cut(s) 304, 555, 581
SsiI CCGC 1 cut(s) 14
StyD4I CCNGG 2 cut(s) 229, 247
TaaI ACNGT 1 cut(s) 36
TaiI ACGT 2 cut(s) 11, 218
TaqI TCGA 1 cut(s) 150
TasI AATT 3 cut(s) 304, 555, 581
TatI WGTACW 1 cut(s) 462
TfiI GAWTC 1 cut(s) 576
TscAI CASTG 1 cut(s) 39
TseFI GTSAC 1 cut(s) 4
TseI GCWGC 1 cut(s) 565
Tsp45I GTSAC 1 cut(s) 4
TspDTI ATGAA 3 cut(s) 125, 140, 588
TspGWI ACGGA 2 cut(s) 76, 492
TspRI CASTG 1 cut(s) 39
VpaK11BI GGWCC 1 cut(s) 54
XmnI GAANNNNTTC 1 cut(s) 434
ZraI GACGTC 1 cut(s) 9
ZrmI AGTACT 1 cut(s) 464
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.