Rh4BG118400

Pre-mRNA 3' end processing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr4B
OG0000356
Physical Location & Seq
Forward (+)
19867664 .. 19868569
906 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh4BG118400.1

Sequence Viewer

Length: 384 bp
ATGGCGTGGAGTTTTGATGATGAAGATTGGATCTCTGGTGATGATGGAGGCACAATCAGGTATTGGAAGAGTAACATGAATAATGTGCTAGTCAATGAATCTGCTCACCAAGAATTGGTTCGGGACTTGAGCTTTTGTAGGAGTAATTTGAAGTTTTGTTCATGTTCGGATGATACTACTGTTAAAATCTGGGATTTTGAACGGTGCCAACAAGAGCAGACATTGACCGGCCATGGTTGGAATGTCAAGAGTGTTGACTGGCACCCAACAAAGTCTCTAATAGCTTCGGGTGGGAAAGACAGTGTTGTCAAACTGTGGGATGCTAGGTCAGGGAGAGAACTTTGTTCATTTTATGATCACAAAAATTGGGTGCATTCTGTTTAG
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0000003 GO:0000375 GO:0000377 GO:0000398 GO:0001650 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005730 GO:0005847 GO:0005849 GO:0006139 GO:0006259 GO:0006281 GO:0006301 GO:0006351 GO:0006353 GO:0006366 GO:0006369 GO:0006378 GO:0006379 GO:0006396 GO:0006397 GO:0006403 GO:0006405 GO:0006406 GO:0006611 GO:0006725 GO:0006807 GO:0006810 GO:0006886 GO:0006913 GO:0006950 GO:0006974 GO:0007276 GO:0007283 GO:0008104 GO:0008150 GO:0008152 GO:0008380 GO:0009058 GO:0009059 GO:0009987 GO:0010467 GO:0015031 GO:0015833 GO:0015931 GO:0016070 GO:0016071 GO:0016604 GO:0016607 GO:0018130 GO:0019438 GO:0019953 GO:0022414 GO:0031123 GO:0031124 GO:0031503 GO:0031974 GO:0031981 GO:0032501 GO:0032504 GO:0032774 GO:0032991 GO:0033036 GO:0033554 GO:0034613 GO:0034641 GO:0034645 GO:0034654 GO:0042886 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0043631 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044452 GO:0044464 GO:0044703 GO:0045184 GO:0046483 GO:0046907 GO:0048232 GO:0048609 GO:0050657 GO:0050658 GO:0050896 GO:0051028 GO:0051168 GO:0051169 GO:0051179 GO:0051234 GO:0051236 GO:0051641 GO:0051649 GO:0051704 GO:0051716 GO:0070013 GO:0070727 GO:0071166 GO:0071426 GO:0071427 GO:0071702 GO:0071704 GO:0071705 GO:0090304 GO:0090305 GO:0090501 GO:0097659 GO:1901360 GO:1901362 GO:1901576
KEGG Pathways
Metabolic & Signaling
ko03015 map03015
Pfam Domains
Protein Families
Collagen WD40

Protein Analysis

127

Amino Acids

14.68

Weight (kDa)

5.42

Isoelectric Point (pI)

33.03

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Beta-prop_THOC3 PF25174 1 - 127 1.2e-21 THOC3 beta-propeller domain
EIF3I PF24805 2 - 71 7.7e-07 EIF3I
WD40_CDC20-Fz PF24807 3 - 122 6.1e-16 CDC20/Fizzy WD40 domain
Beta-prop_WDR3_1st PF25173 4 - 126 6.8e-21 WDR3 first beta-propeller domain
Beta-prop_WDR3_2nd PF25172 4 - 108 3.7e-11 WDR3 second beta-propeller domain
WD40_Prp19 PF24814 11 - 121 4e-17 Prp19 WD40 domain
Beta-prop_WDR5 PF25175 15 - 127 9.4e-23 WDR5 beta-propeller domain
WD40_Gbeta PF25391 22 - 122 7.7e-12 G protein beta WD-40 repeat protein
WDR55 PF24796 24 - 126 7e-11 WDR55
Beta-prop_WDR36-Utp21_2nd PF25168 28 - 124 3.8e-08 WDR36/Utp21 second beta-propeller domain
Beta-prop_EIPR1 PF23609 29 - 106 2.8e-07 EIPR1 beta-propeller
WD40 PF00400 34 - 65 7.2e-06 WD domain, G-beta repeat
Beta-prop_TEP1_2nd PF25047 34 - 124 2.6e-08 TEP-1 second beta-propeller
WD40_WDHD1_1st PF24817 35 - 114 2.6e-11 WDHD1 first WD40 domain
Beta-prop_CAF1B_HIR1 PF24105 35 - 112 5.9e-09 CAF1B/HIR1 beta-propeller domain
Beta-prop_EML_2 PF23414 47 - 127 9.6e-09 Echinoderm microtubule-associated protein second beta-propeller
Beta-prop_WDR90_POC16_2nd PF23393 51 - 124 5.2e-07 WDR90/POC16, second beta-propeller
Beta-prop_SCAP PF24017 51 - 126 1.7e-06 SCAP Beta-propeller
WD40 PF00400 70 - 107 2.8e-10 WD domain, G-beta repeat
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0000356)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G13480 AT5G13480 AT5G13480 AT5G13480
fragaria_vesca FvH4_4g16141 FvH4_5g25490 FvH4_5g25550 FvH4_6g22190 FvH4_6g23330 FvH4_7g02880
malus_domestica MD02G1288700.v1.1 MD07G1038200.v1.1
prunus_persica Prupe.2G034300_v2.0.a1
pyrus_communis pycom02g24420 pycom07g02650
rosa_chinensis RchiOBHm_Chr1g0323831 RchiOBHm_Chr3g0482821 RchiOBHm_Chr3g0482981 RchiOBHm_Chr3g0486211 RchiOBHm_Chr4g0404661 RchiOBHm_Chr5g0010661
rosa_laevigata RLG00000012304 RLG00000017204 RLG00000017697 RLG00000020158 RLG00000030265 RLG00000031770 RLG00000035414
rosa_multiflora Rmu_co8066382.1_g000001 Rmu_co8299121.1_g000001 Rmu_co8338957.1_g000001 Rmu_sc0001371.1_g000014 Rmu_sc0002634.1_g000006 Rmu_sc0004124.1_g000001 Rmu_sc0004540.1_g000008 Rmu_sc0006103.1_g000005 Rmu_sc0006571.1_g000003 Rmu_sc0006601.1_g000005 Rmu_sc0006601.1_g000008 Rmu_sc0006601.1_g000010 Rmu_sc0009883.1_g000005 Rmu_sc0011602.1_g000010 Rmu_sc0011602.1_g000011 Rmu_sc0012513.1_g000008 Rmu_sc0025336.1_g000001 Rmu_sc0026709.1_g000001 Rmu_ssc0000175.1_g000002 Rmu_ssc0000175.1_g000031
rosa_roxburghii Rroxscaffold_1G00027770 Rroxscaffold_1G00065710 Rroxscaffold_3G00243370 Rroxscaffold_3G00243410 Rroxscaffold_3G00243440 Rroxscaffold_3G00243490 Rroxscaffold_4G00326390 Rroxscaffold_6G00398770 Rroxscaffold_6G00398910 Rroxscaffold_6G00398940
rosa_rugosa Rorug01G0039800 Rorug01G0039900 Rorug03G0198000 Rorug03G0198100 Rorug03G0199200 Rorug04G0451600
rosa_samantha Rh1AG057200 Rh1BG048200 Rh1CG058500 Rh1DG062300 Rh1DG062400 Rh2AG304100 Rh2CG002400 Rh2CG642500 Rh2DG328100 Rh3AG250000 Rh3BG285200 Rh3BG286000 Rh3CG284000 Rh3CG285400 Rh3CG307500 Rh3DG278700 Rh3DG279600 Rh3DG281000 Rh3DG303900 Rh4AG124300 Rh4BG118400 Rh4CG132400 Rh4CG132500 Rh4DG015900 Rh5AG083200 Rh5AG417500 Rh5AG538800 Rh5BG078500 Rh5BG447700 Rh5BG541600 Rh5BG541700 Rh5CG091200 Rh5CG564200 Rh5CG564300 Rh5DG078600 Rh5DG545800
rosa_wichuraiana Rw0G000660 Rw0G022360 Rw1G004890 Rw3G022520 Rw3G022590 Rw3G022710 Rw3G024280

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 305
AccB1I GGYRCC 2 cut(s) 204, 261
AccB7I CCANNNNNTGG 1 cut(s) 115
AclWI GGATC 1 cut(s) 38
AcoI YGGCCR 1 cut(s) 229
AfiI CCNNNNNNNGG 1 cut(s) 115
AgsI TTSAA 2 cut(s) 151, 200
AjuI GAANNNNNNNTTGG 2 cut(s) 102, 134
AluBI AGCT 2 cut(s) 132, 284
AluI AGCT 2 cut(s) 132, 284
Alw26I GTCTC 1 cut(s) 279
AlwI GGATC 1 cut(s) 38
AoxI GGCC 1 cut(s) 229
Asp700I GAANNNNTTC 1 cut(s) 117
AsuHPI GGTGA 2 cut(s) 50, 98
BaeI ACNNNNGTAYC 2 cut(s) 165, 198
BanI GGYRCC 2 cut(s) 204, 261
BccI CCATC 1 cut(s) 38
BclI TGATCA 1 cut(s) 355
BcoDI GTCTC 1 cut(s) 279
BfaI CTAG 2 cut(s) 89, 324
BmiI GGNNCC 2 cut(s) 206, 263
BmsI GCATC 1 cut(s) 310
BpuEI CTTGAG 1 cut(s) 148
BsaJI CCNNGG 1 cut(s) 232
Bsc4I CCNNNNNNNGG 1 cut(s) 115
Bse118I RCCGGY 1 cut(s) 227
Bse1I ACTGG 1 cut(s) 263
BseDI CCNNGG 1 cut(s) 232
BseGI GGATG 2 cut(s) 175, 325
BseLI CCNNNNNNNGG 1 cut(s) 115
BseNI ACTGG 1 cut(s) 263
BshFI GGCC 1 cut(s) 231
BshNI GGYRCC 2 cut(s) 204, 261
BsiSI CCGG 1 cut(s) 228
BslFI GGGAC 1 cut(s) 137
BslI CCNNNNNNNGG 1 cut(s) 115
BsmAI GTCTC 1 cut(s) 279
BsmFI GGGAC 1 cut(s) 137
BsmI GAATGC 1 cut(s) 373
BsnI GGCC 1 cut(s) 231
Bsp143I GATC 2 cut(s) 30, 355
Bsp19I CCATGG 1 cut(s) 232
BspANI GGCC 1 cut(s) 231
BspLI GGNNCC 2 cut(s) 206, 263
BspPI GGATC 1 cut(s) 38
BspT107I GGYRCC 2 cut(s) 204, 261
BsrFI RCCGGY 1 cut(s) 227
BsrI ACTGG 1 cut(s) 263
BssAI RCCGGY 1 cut(s) 227
BssECI CCNNGG 1 cut(s) 232
BssMI GATC 2 cut(s) 30, 355
BssT1I CCWWGG 1 cut(s) 232
Bst4CI ACNGT 4 cut(s) 181, 204, 302, 315
Bst6I CTCTTC 1 cut(s) 62
BstDSI CCRYGG 1 cut(s) 232
BstF5I GGATG 2 cut(s) 175, 325
BstKTI GATC 2 cut(s) 33, 358
BstMAI GTCTC 1 cut(s) 279
BstMBI GATC 2 cut(s) 30, 355
BstX2I RGATCY 1 cut(s) 30
BstYI RGATCY 1 cut(s) 30
BsuRI GGCC 1 cut(s) 231
BtgI CCRYGG 1 cut(s) 232
BtsCI GGATG 2 cut(s) 175, 325
BtsIMutI CAGTG 1 cut(s) 307
Cfr10I RCCGGY 1 cut(s) 227
CviAII CATG 3 cut(s) 76, 162, 233
CviJI RGCY 3 cut(s) 132, 231, 284
CviKI_1 RGCY 3 cut(s) 132, 231, 284
DpnI GATC 2 cut(s) 32, 357
DpnII GATC 2 cut(s) 30, 355
DrdI GACNNNNNNGTC 1 cut(s) 305
DseDI GACNNNNNNGTC 1 cut(s) 305
EaeI YGGCCR 1 cut(s) 229
Eam1104I CTCTTC 1 cut(s) 62
EarI CTCTTC 1 cut(s) 62
Eco130I CCWWGG 1 cut(s) 232
EcoT14I CCWWGG 1 cut(s) 232
ErhI CCWWGG 1 cut(s) 232
FaeI CATG 3 cut(s) 79, 165, 236
FaiI YATR 4 cut(s) 77, 163, 234, 354
FaqI GGGAC 1 cut(s) 137
FatI CATG 3 cut(s) 75, 161, 232
FbaI TGATCA 1 cut(s) 355
FokI GGATG 2 cut(s) 182, 332
FspBI CTAG 2 cut(s) 89, 324
HaeIII GGCC 1 cut(s) 231
HapII CCGG 1 cut(s) 228
Hin1II CATG 3 cut(s) 79, 165, 236
HincII GTYRAC 1 cut(s) 256
HindII GTYRAC 1 cut(s) 256
HinfI GANTC 1 cut(s) 98
HpaII CCGG 1 cut(s) 228
HphI GGTGA 2 cut(s) 50, 98
Hpy166II GTNNAC 1 cut(s) 256
Hpy188I TCNGA 1 cut(s) 169
Hpy188III TCNNGA 2 cut(s) 122, 247
Hpy8I GTNNAC 1 cut(s) 256
HpyCH4III ACNGT 4 cut(s) 181, 204, 302, 315
HpyCH4V TGCA 1 cut(s) 373
Hsp92II CATG 3 cut(s) 79, 165, 236
Ksp22I TGATCA 1 cut(s) 355
Kzo9I GATC 2 cut(s) 30, 355
LpnPI CCDG 6 cut(s) 21, 43, 175, 241, 244, 315
LweI GCATC 1 cut(s) 310
MaeI CTAG 2 cut(s) 89, 324
MaeIII GTNAC 1 cut(s) 71
MalI GATC 2 cut(s) 32, 357
MboI GATC 2 cut(s) 30, 355
MboII GAAGA 2 cut(s) 35, 79
MflI RGATCY 1 cut(s) 30
MluCI AATT 3 cut(s) 113, 145, 364
MmeI TCCRAC 1 cut(s) 218
MnlI CCTC 1 cut(s) 41
MroXI GAANNNNTTC 1 cut(s) 117
MseI TTAA 1 cut(s) 183
MspI CCGG 1 cut(s) 228
Mva1269I GAATGC 1 cut(s) 373
NcoI CCATGG 1 cut(s) 232
NdeII GATC 2 cut(s) 30, 355
NlaIII CATG 3 cut(s) 79, 165, 236
NlaIV GGNNCC 2 cut(s) 206, 263
PctI GAATGC 1 cut(s) 373
PdmI GAANNNNTTC 1 cut(s) 117
PfeI GAWTC 1 cut(s) 98
PflMI CCANNNNNTGG 1 cut(s) 115
PspN4I GGNNCC 2 cut(s) 206, 263
PsuI RGATCY 1 cut(s) 30
SaqAI TTAA 1 cut(s) 183
Sau3AI GATC 2 cut(s) 30, 355
SetI ASST 4 cut(s) 62, 134, 286, 329
SfaNI GCATC 1 cut(s) 310
SmlI CTYRAG 1 cut(s) 127
SmoI CTYRAG 1 cut(s) 127
Sse9I AATT 3 cut(s) 113, 145, 364
SspMI CTAG 2 cut(s) 89, 324
StyI CCWWGG 1 cut(s) 232
TaaI ACNGT 4 cut(s) 181, 204, 302, 315
TasI AATT 3 cut(s) 113, 145, 364
TfiI GAWTC 1 cut(s) 98
Tru1I TTAA 1 cut(s) 183
Tru9I TTAA 1 cut(s) 183
TscAI CASTG 1 cut(s) 307
TspDTI ATGAA 5 cut(s) 36, 92, 111, 150, 336
TspRI CASTG 1 cut(s) 307
Van91I CCANNNNNTGG 1 cut(s) 115
XmnI GAANNNNTTC 1 cut(s) 117
XspI CTAG 2 cut(s) 89, 324
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.