Rh2CG085000

Pre-mRNA-splicing factor ATP-dependent RNA

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr2C
OG0000671
Physical Location & Seq
Reverse (-)
6994161 .. 7005277
11117 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh2CG085000.1

Sequence Viewer

Length: 648 bp
ATGGTCTTTGTTTCAAAGATGAGGATGAGTCCCATTAAGACATTGATTTTAGGTAGCAGAAGAGCTTTACCAATCTGGTATAAACTGGATGTTGTGAGTGCTGGAAAGAATTTTACACAGATCAGGAAGGCAATTACGGCGAGATTTTTCTTCCATGATGCTAGAAAGGACCCTCAGGAGGGTTATAGAACCTTAGTGGAGAACCAGCCAGTTTATATCCATCCAAGCAGTGCGCTCTTCCAGAGACAACCAGATTGGATCATCTACCATGAGTTGGTTATGACTACGAAGGAGTATATGCGTGAGGTAACCGTCGTTGATCCCAAATGGCTTGTGGAACTAGCACCCAGGTTCTTCAAAGTGGCTGACCCTACCAAGATGAGTAAGCGCAAGCGTCAAGAGCGTATTGAACCGCTATATGACAGATACCATGAACCAAACTCTTGGCGTATCCATTTTGGGGTCGAAGAAGAAATCACAGCTCCAGCAGTCTCCATCTGGCTCTCTATTTGGAAACATATTTGCCTCTGCACATCTGGTGCAGAGGAGAGAGAAACAAAGGGCCATTTCTTTTGCAAGGGGCAGAAATTCAATTCCATAAAGTTCCAGTGTTGTTTATTTCTTCACAACCGCTTCTGTTTCAACTGA
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

215

Amino Acids

25.59

Weight (kDa)

9.55

Isoelectric Point (pI)

49.5

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
OB_NTP_bind PF07717 41 - 117 1.9e-24 Oligonucleotide/oligosaccharide-binding (OB)-fold
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: 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) 274
AciI CCGC 2 cut(s) 413, 631
AclWI GGATC 2 cut(s) 266, 314
AcsI RAATTY 2 cut(s) 109, 587
AfiI CCNNNNNNNGG 4 cut(s) 178, 179, 274, 460
AgsI TTSAA 5 cut(s) 15, 358, 410, 592, 643
AjnI CCWGG 1 cut(s) 347
AluBI AGCT 2 cut(s) 65, 482
AluI AGCT 2 cut(s) 65, 482
Alw26I GTCTC 2 cut(s) 238, 496
AlwI GGATC 2 cut(s) 266, 314
AoxI GGCC 1 cut(s) 562
ApoI RAATTY 2 cut(s) 109, 587
AspLEI GCGC 2 cut(s) 235, 390
AspS9I GGNCC 2 cut(s) 169, 562
AvaII GGWCC 1 cut(s) 169
AxyI CCTNAGG 1 cut(s) 174
BccI CCATC 2 cut(s) 228, 503
BceAI ACGGC 1 cut(s) 153
BciT130I CCWGG 1 cut(s) 349
BciVI GTATCC 1 cut(s) 461
BcoDI GTCTC 2 cut(s) 238, 496
BfaI CTAG 2 cut(s) 162, 341
BfuI GTATCC 1 cut(s) 461
Bme1390I CCNGG 1 cut(s) 349
Bme18I GGWCC 1 cut(s) 169
BmgT120I GGNCC 2 cut(s) 169, 562
BmiI GGNNCC 1 cut(s) 171
BmrFI CCNGG 1 cut(s) 349
BmsI GCATC 1 cut(s) 148
BpmI CTGGAG 1 cut(s) 468
BsaJI CCNNGG 1 cut(s) 347
Bsc4I CCNNNNNNNGG 4 cut(s) 178, 179, 274, 460
Bse1I ACTGG 3 cut(s) 90, 209, 607
Bse21I CCTNAGG 1 cut(s) 174
BseBI CCWGG 1 cut(s) 349
BseDI CCNNGG 1 cut(s) 347
BseGI GGATG 3 cut(s) 30, 94, 220
BseLI CCNNNNNNNGG 4 cut(s) 178, 179, 274, 460
BseMII CTCAG 1 cut(s) 188
BseNI ACTGG 3 cut(s) 90, 209, 607
BseRI GAGGAG 1 cut(s) 560
BsgI GTGCAG 2 cut(s) 514, 561
BshFI GGCC 1 cut(s) 564
BslFI GGGAC 1 cut(s) 15
BslI CCNNNNNNNGG 4 cut(s) 178, 179, 274, 460
BsmAI GTCTC 2 cut(s) 238, 496
BsmFI GGGAC 1 cut(s) 15
BsnI GGCC 1 cut(s) 564
Bsp143I GATC 3 cut(s) 120, 258, 319
BspACI CCGC 2 cut(s) 413, 631
BspANI GGCC 1 cut(s) 564
BspCNI CTCAG 1 cut(s) 187
BspLI GGNNCC 1 cut(s) 171
BspPI GGATC 2 cut(s) 266, 314
BspQI GCTCTTC 2 cut(s) 55, 242
BsrI ACTGG 3 cut(s) 90, 209, 607
BssECI CCNNGG 1 cut(s) 347
BssMI GATC 3 cut(s) 120, 258, 319
Bst2UI CCWGG 1 cut(s) 349
Bst4CI ACNGT 1 cut(s) 313
Bst6I CTCTTC 2 cut(s) 55, 242
BstC8I GCNNGC 1 cut(s) 392
BstDEI CTNAG 2 cut(s) 174, 193
BstEII GGTNACC 1 cut(s) 307
BstF5I GGATG 3 cut(s) 30, 94, 220
BstHHI GCGC 2 cut(s) 235, 390
BstKTI GATC 3 cut(s) 123, 261, 322
BstMAI GTCTC 2 cut(s) 238, 496
BstMBI GATC 3 cut(s) 120, 258, 319
BstMWI GCNNNNNNNGC 2 cut(s) 137, 400
BstNI CCWGG 1 cut(s) 349
BstPI GGTNACC 1 cut(s) 307
BstSCI CCNGG 1 cut(s) 347
BstXI CCANNNNNNTGG 1 cut(s) 444
Bsu36I CCTNAGG 1 cut(s) 174
BsuI GTATCC 1 cut(s) 461
BsuRI GGCC 1 cut(s) 564
BtsCI GGATG 3 cut(s) 30, 94, 220
BtsI GCAGTG 1 cut(s) 235
BtsIMutI CAGTG 2 cut(s) 235, 614
Cac8I GCNNGC 1 cut(s) 392
CfoI GCGC 2 cut(s) 235, 390
Cfr13I GGNCC 2 cut(s) 169, 562
CseI GACGC 1 cut(s) 383
CviAII CATG 3 cut(s) 155, 269, 431
CviJI RGCY 7 cut(s) 65, 208, 331, 365, 482, 502, 564
CviKI_1 RGCY 7 cut(s) 65, 208, 331, 365, 482, 502, 564
DdeI CTNAG 2 cut(s) 174, 193
DpnI GATC 3 cut(s) 122, 260, 321
DpnII GATC 3 cut(s) 120, 258, 319
Eam1104I CTCTTC 2 cut(s) 55, 242
EarI CTCTTC 2 cut(s) 55, 242
Eco47I GGWCC 1 cut(s) 169
Eco81I CCTNAGG 1 cut(s) 174
Eco91I GGTNACC 1 cut(s) 307
EcoO109I RGGNCCY 1 cut(s) 169
EcoO65I GGTNACC 1 cut(s) 307
EcoRII CCWGG 1 cut(s) 347
FaeI CATG 3 cut(s) 158, 272, 434
FaqI GGGAC 1 cut(s) 15
FatI CATG 3 cut(s) 154, 268, 430
FokI GGATG 3 cut(s) 37, 101, 207
FspBI CTAG 2 cut(s) 162, 341
GlaI GCGC 2 cut(s) 234, 389
GsuI CTGGAG 1 cut(s) 468
HaeIII GGCC 1 cut(s) 564
HgaI GACGC 1 cut(s) 383
HhaI GCGC 2 cut(s) 235, 390
Hin1II CATG 3 cut(s) 158, 272, 434
Hin6I GCGC 2 cut(s) 233, 388
HinP1I GCGC 2 cut(s) 233, 388
HinfI GANTC 1 cut(s) 28
Hpy188III TCNNGA 4 cut(s) 124, 176, 241, 398
Hpy99I CGWCG 1 cut(s) 317
HpyAV CCTTC 2 cut(s) 121, 283
HpyCH4III ACNGT 1 cut(s) 313
HpyCH4V TGCA 3 cut(s) 531, 542, 576
HpyF10VI GCNNNNNNNGC 2 cut(s) 137, 400
HpyF3I CTNAG 2 cut(s) 174, 193
Hsp92II CATG 3 cut(s) 158, 272, 434
HspAI GCGC 2 cut(s) 233, 388
Kzo9I GATC 3 cut(s) 120, 258, 319
LguI GCTCTTC 2 cut(s) 55, 242
LmnI GCTCC 1 cut(s) 487
LweI GCATC 1 cut(s) 148
MaeI CTAG 2 cut(s) 162, 341
MaeIII GTNAC 1 cut(s) 307
MalI GATC 3 cut(s) 122, 260, 321
MboI GATC 3 cut(s) 120, 258, 319
MboII GAAGA 7 cut(s) 72, 142, 229, 346, 479, 482, 614
MluCI AATT 4 cut(s) 109, 132, 587, 592
MlyI GAGTC 1 cut(s) 37
MnlI CCTC 6 cut(s) 15, 172, 183, 298, 536, 538
MseI TTAA 1 cut(s) 36
MspR9I CCNGG 1 cut(s) 349
MvaI CCWGG 1 cut(s) 349
MwoI GCNNNNNNNGC 2 cut(s) 137, 400
NdeII GATC 3 cut(s) 120, 258, 319
NlaIII CATG 3 cut(s) 158, 272, 434
NlaIV GGNNCC 1 cut(s) 171
PciSI GCTCTTC 2 cut(s) 55, 242
PflMI CCANNNNNTGG 1 cut(s) 274
PleI GAGTC 1 cut(s) 36
PpsI GAGTC 1 cut(s) 36
PpuMI RGGWCCY 1 cut(s) 169
Psp5II RGGWCCY 1 cut(s) 169
Psp6I CCWGG 1 cut(s) 347
PspEI GGTNACC 1 cut(s) 307
PspGI CCWGG 1 cut(s) 347
PspN4I GGNNCC 1 cut(s) 171
PspPI GGNCC 2 cut(s) 169, 562
PspPPI RGGWCCY 1 cut(s) 169
SapI GCTCTTC 2 cut(s) 55, 242
SaqAI TTAA 1 cut(s) 36
Sau3AI GATC 3 cut(s) 120, 258, 319
Sau96I GGNCC 2 cut(s) 169, 562
SchI GAGTC 1 cut(s) 37
ScrFI CCNGG 1 cut(s) 349
SetI ASST 6 cut(s) 55, 67, 194, 309, 353, 484
SfaNI GCATC 1 cut(s) 148
SinI GGWCC 1 cut(s) 169
Sse9I AATT 4 cut(s) 109, 132, 587, 592
SsiI CCGC 2 cut(s) 413, 631
SspMI CTAG 2 cut(s) 162, 341
StyD4I CCNGG 1 cut(s) 347
TaaI ACNGT 1 cut(s) 313
TaqI TCGA 1 cut(s) 465
TasI AATT 4 cut(s) 109, 132, 587, 592
Tru1I TTAA 1 cut(s) 36
Tru9I TTAA 1 cut(s) 36
TscAI CASTG 2 cut(s) 235, 614
TspDTI ATGAA 1 cut(s) 447
TspRI CASTG 2 cut(s) 235, 614
Van91I CCANNNNNTGG 1 cut(s) 274
VpaK11BI GGWCC 1 cut(s) 169
XapI RAATTY 2 cut(s) 109, 587
XcmI CCANNNNNNNNNTGG 1 cut(s) 331
XspI CTAG 2 cut(s) 162, 341
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.