Rorug01G0221500

Pre-mRNA-splicing factor ATP-dependent RNA

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000001
OG0000671
Physical Location & Seq
Reverse (-)
31775142 .. 31775528
387 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug01G0221500.1

Sequence Viewer

Length: 387 bp
ATGAACTTTGACGGAGCAGGGGATGTAAAAAATGGTGTTTGTGAGTTAGGCGTGGTATTCAGAGATGAAAGAGGAAGCTTAAGAGGTGTCAGGGCTGTCCCACAGATTGGGAACCTTCCCCCAAGGTCTTTCGAAGCTCTAGCTCTTCTACATGGTCTCAGGTTTGCTCTTCATGTTGGGTTTAGAAATCTGGAGGTTGAAGGTGATGTTTTAAATGTCATTAGTGCCTTGCAAGTTGAGAGTGATGATCTCAGTTCTGAGGGTCATATCTTAGATGAAGTCAAGTCTTTAGTTAAGTCTTTTTCAGTTTGTAGTTGGCACTTTGTAAGACGGGATGGCAATAAAGTACGTTGTCCATCGTCTTGCCAACGAAGCCTTAAAACTTAG
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko03040 map03040
Pfam Domains
Protein Families
DEAD HA2 Helicase_C OB_NTP_bind S1

Protein Analysis

128

Amino Acids

14.06

Weight (kDa)

6.89

Isoelectric Point (pI)

43.26

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RVT_3 PF13456 2 - 116 1.5e-21 Reverse transcriptase-like
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0000671)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G26560
fragaria_vesca FvH4_3g44820 FvH4_4g07500 FvH4_4g07500 FvH4_4g07500 FvH4_4g07850 FvH4_4g07850 FvH4_7g12750
malus_domestica MD09G1231900.v1.1 MD15G1068900.v1.1 MD15G1069000.v1.1 MD16G1254900.v1.1 MD17G1229800.v1.1
prunus_persica Prupe.1G082300_v2.0.a1 Prupe.1G368500_v2.0.a1 Prupe.1G422500_v2.0.a1 Prupe.2G077500_v2.0.a1 Prupe.2G077900_v2.0.a1 Prupe.2G077900_v2.0.a1 Prupe.2G078200_v2.0.a1
pyrus_communis pycom08g06730 pycom09g15120 pycom15g06530 pycom16g21640 pycom17g23220 pycom17g23230 pycom17g23240
rosa_chinensis RchiOBHm_Chr1g0351781 RchiOBHm_Chr4g0400041 RchiOBHm_Chr4g0401121 RchiOBHm_Chr5g0079971 RchiOBHm_Chr5g0081521 RchiOBHm_Chr7g0219091
rosa_laevigata RLG00000009162 RLG00000009217 RLG00000028384 RLG00000036944
rosa_multiflora Rmu_co8434143.1_g000001 Rmu_sc0001909.1_g000017 Rmu_sc0001909.1_g000025 Rmu_sc0001933.1_g000012 Rmu_sc0004005.1_g000001 Rmu_sc0007702.1_g000002 Rmu_sc0010608.1_g000004
rosa_roxburghii Rroxscaffold_1G00002030 Rroxscaffold_4G00303550 Rroxscaffold_5G00345000 Rroxscaffold_5G00345950 Rroxscaffold_5G00345970
rosa_rugosa Rorug01G0221400 Rorug01G0221500 Rorug04G0022300 Rorug04G0022400 Rorug04G0028000 Rorug05G0476900
rosa_samantha Rh1AG235400 Rh1BG205800 Rh1CG220000 Rh1DG232900 Rh2AG475800 Rh2BG083000 Rh2CG085000 Rh4AG097800 Rh4AG105600 Rh4AG109800 Rh4BG095800 Rh4CG107200 Rh4CG114200 Rh4DG092600 Rh4DG097800 Rh5BG553100 Rh5DG563200
rosa_wichuraiana Rw1G020490 Rw4G008160 Rw4G008530 Rw5G049150

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB7I CCANNNNNTGG 1 cut(s) 107
AfaI GTAC 1 cut(s) 348
AfiI CCNNNNNNNGG 1 cut(s) 107
AflII CTTAAG 1 cut(s) 79
AgsI TTSAA 1 cut(s) 200
AluBI AGCT 3 cut(s) 78, 137, 143
AluI AGCT 3 cut(s) 78, 137, 143
Alw26I GTCTC 1 cut(s) 161
AsuHPI GGTGA 1 cut(s) 215
AsuII TTCGAA 1 cut(s) 132
BccI CCATC 2 cut(s) 329, 364
BcoDI GTCTC 1 cut(s) 161
BfaI CTAG 1 cut(s) 140
BfrI CTTAAG 1 cut(s) 79
BmiI GGNNCC 1 cut(s) 113
BpmI CTGGAG 1 cut(s) 212
Bpu14I TTCGAA 1 cut(s) 132
BsaI GGTCTC 1 cut(s) 161
BsaJI CCNNGG 1 cut(s) 122
Bsc4I CCNNNNNNNGG 1 cut(s) 107
BseDI CCNNGG 1 cut(s) 122
BseGI GGATG 2 cut(s) 28, 340
BseLI CCNNNNNNNGG 1 cut(s) 107
BseMII CTCAG 3 cut(s) 172, 249, 265
BslFI GGGAC 1 cut(s) 83
BslI CCNNNNNNNGG 1 cut(s) 107
BsmAI GTCTC 1 cut(s) 161
BsmFI GGGAC 1 cut(s) 83
Bso31I GGTCTC 1 cut(s) 161
Bsp119I TTCGAA 1 cut(s) 132
Bsp143I GATC 1 cut(s) 247
BspCNI CTCAG 3 cut(s) 171, 250, 264
BspLI GGNNCC 1 cut(s) 113
BspQI GCTCTTC 2 cut(s) 150, 174
BspT104I TTCGAA 1 cut(s) 132
BspTI CTTAAG 1 cut(s) 79
BspTNI GGTCTC 1 cut(s) 161
BssECI CCNNGG 1 cut(s) 122
BssMI GATC 1 cut(s) 247
BssT1I CCWWGG 1 cut(s) 122
Bst6I CTCTTC 2 cut(s) 150, 174
BstAFI CTTAAG 1 cut(s) 79
BstBI TTCGAA 1 cut(s) 132
BstDEI CTNAG 5 cut(s) 158, 251, 258, 271, 384
BstF5I GGATG 2 cut(s) 28, 340
BstKTI GATC 1 cut(s) 250
BstMAI GTCTC 1 cut(s) 161
BstMBI GATC 1 cut(s) 247
BstMWI GCNNNNNNNGC 1 cut(s) 372
BtsCI GGATG 2 cut(s) 28, 340
Csp6I GTAC 1 cut(s) 347
CviAII CATG 2 cut(s) 152, 173
CviJI RGCY 5 cut(s) 78, 95, 137, 143, 375
CviKI_1 RGCY 5 cut(s) 78, 95, 137, 143, 375
CviQI GTAC 1 cut(s) 347
DdeI CTNAG 5 cut(s) 158, 251, 258, 271, 384
DpnI GATC 1 cut(s) 249
DpnII GATC 1 cut(s) 247
DraI TTTAAA 1 cut(s) 213
Eam1104I CTCTTC 2 cut(s) 150, 174
EarI CTCTTC 2 cut(s) 150, 174
Eco130I CCWWGG 1 cut(s) 122
Eco31I GGTCTC 1 cut(s) 161
EcoT14I CCWWGG 1 cut(s) 122
ErhI CCWWGG 1 cut(s) 122
FaeI CATG 2 cut(s) 155, 176
FaiI YATR 3 cut(s) 153, 174, 267
FaqI GGGAC 1 cut(s) 83
FatI CATG 2 cut(s) 151, 172
FokI GGATG 2 cut(s) 35, 347
FspBI CTAG 1 cut(s) 140
GsuI CTGGAG 1 cut(s) 212
Hin1II CATG 2 cut(s) 155, 176
HindIII AAGCTT 1 cut(s) 76
HphI GGTGA 1 cut(s) 215
Hpy188I TCNGA 2 cut(s) 62, 259
Hpy188III TCNNGA 1 cut(s) 191
HpyAV CCTTC 2 cut(s) 125, 194
HpyCH4IV ACGT 1 cut(s) 349
HpyCH4V TGCA 1 cut(s) 232
HpyF10VI GCNNNNNNNGC 1 cut(s) 372
HpyF3I CTNAG 5 cut(s) 158, 251, 258, 271, 384
HpySE526I ACGT 1 cut(s) 349
Hsp92II CATG 2 cut(s) 155, 176
Kzo9I GATC 1 cut(s) 247
LguI GCTCTTC 2 cut(s) 150, 174
LmnI GCTCC 1 cut(s) 14
LpnPI CCDG 4 cut(s) 3, 76, 145, 176
MaeI CTAG 1 cut(s) 140
MaeII ACGT 1 cut(s) 349
MalI GATC 1 cut(s) 249
MboI GATC 1 cut(s) 247
MboII GAAGA 2 cut(s) 137, 161
MnlI CCTC 4 cut(s) 65, 77, 187, 253
MseI TTAA 4 cut(s) 80, 212, 294, 378
MspCI CTTAAG 1 cut(s) 79
MwoI GCNNNNNNNGC 1 cut(s) 372
NdeII GATC 1 cut(s) 247
NlaIII CATG 2 cut(s) 155, 176
NlaIV GGNNCC 1 cut(s) 113
NspV TTCGAA 1 cut(s) 132
PciSI GCTCTTC 2 cut(s) 150, 174
PflMI CCANNNNNTGG 1 cut(s) 107
PspN4I GGNNCC 1 cut(s) 113
RsaI GTAC 1 cut(s) 348
RsaNI GTAC 1 cut(s) 347
SapI GCTCTTC 2 cut(s) 150, 174
SaqAI TTAA 4 cut(s) 80, 212, 294, 378
Sau3AI GATC 1 cut(s) 247
SfuI TTCGAA 1 cut(s) 132
SmlI CTYRAG 1 cut(s) 79
SmoI CTYRAG 1 cut(s) 79
SspMI CTAG 1 cut(s) 140
StyI CCWWGG 1 cut(s) 122
TaiI ACGT 1 cut(s) 352
TaqI TCGA 1 cut(s) 132
Tru1I TTAA 4 cut(s) 80, 212, 294, 378
Tru9I TTAA 4 cut(s) 80, 212, 294, 378
TspDTI ATGAA 4 cut(s) 17, 81, 161, 291
TspGWI ACGGA 1 cut(s) 27
Van91I CCANNNNNTGG 1 cut(s) 107
Vha464I CTTAAG 1 cut(s) 79
XspI CTAG 1 cut(s) 140
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.