Rh2BG083000

Pre-mRNA-splicing factor ATP-dependent RNA

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr2B
OG0000671
Physical Location & Seq
Reverse (-)
6429443 .. 6440559
11117 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh2BG083000.1

Sequence Viewer

Length: 651 bp
ATGGTCTTTGTTTCAAAGATGAGGATGAGTCCCATTAAGGTAAACCCAAATGCTGGTAGCAGAAGAGCTTTACCAATCTGGTATAAACTGGATGTTGTGAGTGCTGGAAAGAATTTTACACAGATCAGGAAGGCAATTACGGCGAGATTTTTCTTCCATGATGCTAGAAAGGACCCTCAGGAGGGTTATAGAACCTTAGTGGAGAACCAGCCAGTTTATATCCATCCAAGCAGTGCGCTCTTCCAGAGACAACCAGATTGGATCATCTACCATGAGTTGGTTATGACTACGAAGGAGTATATGCGTGAGGTAACCGTCGTTGATCCCAAATGGCTTGTGGAACTAGCACCCAGGTTCTTCAAAGTGGCTGACCCTACCAAGATGAGTAAGCGCAAGCGTCAAGAGCGTATTGAACCGCTATATGACAGATACCATGAACCAAACTCTTGGCGTATCCATTTTGGGGTCGAAGAAGAAATCACAGCTCCAGCAGTCTCCATCTGGCTCTCTATTTGGAAACATATTTGCCTCTGCACATCTGGTGCAGAGGAGAGAGAAACAAAGGGCCATTTCTTTTGCAAGGGGCAGAAATTCAATTCCATAAAGTTCCAGTGTTGTTTATTTCTTCACAACCGCTTCTGTTTCAACTGA
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

216

Amino Acids

25.65

Weight (kDa)

9.55

Isoelectric Point (pI)

47.9

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
OB_NTP_bind PF07717 42 - 118 2e-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 2 cut(s) 53, 277
AciI CCGC 2 cut(s) 416, 634
AclWI GGATC 2 cut(s) 269, 317
AcsI RAATTY 2 cut(s) 112, 590
AfiI CCNNNNNNNGG 5 cut(s) 53, 181, 182, 277, 463
AgsI TTSAA 5 cut(s) 15, 361, 413, 595, 646
AjnI CCWGG 1 cut(s) 350
AluBI AGCT 2 cut(s) 68, 485
AluI AGCT 2 cut(s) 68, 485
Alw26I GTCTC 2 cut(s) 241, 499
AlwI GGATC 2 cut(s) 269, 317
AoxI GGCC 1 cut(s) 565
ApoI RAATTY 2 cut(s) 112, 590
AspLEI GCGC 2 cut(s) 238, 393
AspS9I GGNCC 2 cut(s) 172, 565
AvaII GGWCC 1 cut(s) 172
AxyI CCTNAGG 1 cut(s) 177
BccI CCATC 2 cut(s) 231, 506
BceAI ACGGC 1 cut(s) 156
BciT130I CCWGG 1 cut(s) 352
BciVI GTATCC 1 cut(s) 464
BcoDI GTCTC 2 cut(s) 241, 499
BfaI CTAG 2 cut(s) 165, 344
BfuI GTATCC 1 cut(s) 464
Bme1390I CCNGG 1 cut(s) 352
Bme18I GGWCC 1 cut(s) 172
BmgT120I GGNCC 2 cut(s) 172, 565
BmiI GGNNCC 1 cut(s) 174
BmrFI CCNGG 1 cut(s) 352
BmsI GCATC 1 cut(s) 151
BpmI CTGGAG 1 cut(s) 471
BsaJI CCNNGG 1 cut(s) 350
Bsc4I CCNNNNNNNGG 5 cut(s) 53, 181, 182, 277, 463
Bse1I ACTGG 3 cut(s) 93, 212, 610
Bse21I CCTNAGG 1 cut(s) 177
BseBI CCWGG 1 cut(s) 352
BseDI CCNNGG 1 cut(s) 350
BseGI GGATG 3 cut(s) 30, 97, 223
BseLI CCNNNNNNNGG 5 cut(s) 53, 181, 182, 277, 463
BseMII CTCAG 1 cut(s) 191
BseNI ACTGG 3 cut(s) 93, 212, 610
BseRI GAGGAG 1 cut(s) 563
BsgI GTGCAG 2 cut(s) 517, 564
BshFI GGCC 1 cut(s) 567
BslFI GGGAC 1 cut(s) 15
BslI CCNNNNNNNGG 5 cut(s) 53, 181, 182, 277, 463
BsmAI GTCTC 2 cut(s) 241, 499
BsmFI GGGAC 1 cut(s) 15
BsnI GGCC 1 cut(s) 567
Bsp143I GATC 3 cut(s) 123, 261, 322
BspACI CCGC 2 cut(s) 416, 634
BspANI GGCC 1 cut(s) 567
BspCNI CTCAG 1 cut(s) 190
BspLI GGNNCC 1 cut(s) 174
BspPI GGATC 2 cut(s) 269, 317
BspQI GCTCTTC 2 cut(s) 58, 245
BsrI ACTGG 3 cut(s) 93, 212, 610
BssECI CCNNGG 1 cut(s) 350
BssMI GATC 3 cut(s) 123, 261, 322
Bst2UI CCWGG 1 cut(s) 352
Bst4CI ACNGT 1 cut(s) 316
Bst6I CTCTTC 2 cut(s) 58, 245
BstC8I GCNNGC 1 cut(s) 395
BstDEI CTNAG 2 cut(s) 177, 196
BstEII GGTNACC 1 cut(s) 310
BstF5I GGATG 3 cut(s) 30, 97, 223
BstHHI GCGC 2 cut(s) 238, 393
BstKTI GATC 3 cut(s) 126, 264, 325
BstMAI GTCTC 2 cut(s) 241, 499
BstMBI GATC 3 cut(s) 123, 261, 322
BstMWI GCNNNNNNNGC 2 cut(s) 140, 403
BstNI CCWGG 1 cut(s) 352
BstPI GGTNACC 1 cut(s) 310
BstSCI CCNGG 1 cut(s) 350
BstXI CCANNNNNNTGG 1 cut(s) 447
Bsu36I CCTNAGG 1 cut(s) 177
BsuI GTATCC 1 cut(s) 464
BsuRI GGCC 1 cut(s) 567
BtsCI GGATG 3 cut(s) 30, 97, 223
BtsI GCAGTG 1 cut(s) 238
BtsIMutI CAGTG 2 cut(s) 238, 617
Cac8I GCNNGC 1 cut(s) 395
CfoI GCGC 2 cut(s) 238, 393
Cfr13I GGNCC 2 cut(s) 172, 565
CseI GACGC 1 cut(s) 386
CviAII CATG 3 cut(s) 158, 272, 434
CviJI RGCY 7 cut(s) 68, 211, 334, 368, 485, 505, 567
CviKI_1 RGCY 7 cut(s) 68, 211, 334, 368, 485, 505, 567
DdeI CTNAG 2 cut(s) 177, 196
DpnI GATC 3 cut(s) 125, 263, 324
DpnII GATC 3 cut(s) 123, 261, 322
Eam1104I CTCTTC 2 cut(s) 58, 245
EarI CTCTTC 2 cut(s) 58, 245
Eco47I GGWCC 1 cut(s) 172
Eco81I CCTNAGG 1 cut(s) 177
Eco91I GGTNACC 1 cut(s) 310
EcoO109I RGGNCCY 1 cut(s) 172
EcoO65I GGTNACC 1 cut(s) 310
EcoRII CCWGG 1 cut(s) 350
FaeI CATG 3 cut(s) 161, 275, 437
FaqI GGGAC 1 cut(s) 15
FatI CATG 3 cut(s) 157, 271, 433
FokI GGATG 3 cut(s) 37, 104, 210
FspBI CTAG 2 cut(s) 165, 344
GlaI GCGC 2 cut(s) 237, 392
GsuI CTGGAG 1 cut(s) 471
HaeIII GGCC 1 cut(s) 567
HgaI GACGC 1 cut(s) 386
HhaI GCGC 2 cut(s) 238, 393
Hin1II CATG 3 cut(s) 161, 275, 437
Hin6I GCGC 2 cut(s) 236, 391
HinP1I GCGC 2 cut(s) 236, 391
HinfI GANTC 1 cut(s) 28
Hpy166II GTNNAC 1 cut(s) 43
Hpy188III TCNNGA 4 cut(s) 127, 179, 244, 401
Hpy8I GTNNAC 1 cut(s) 43
Hpy99I CGWCG 1 cut(s) 320
HpyAV CCTTC 2 cut(s) 124, 286
HpyCH4III ACNGT 1 cut(s) 316
HpyCH4V TGCA 3 cut(s) 534, 545, 579
HpyF10VI GCNNNNNNNGC 2 cut(s) 140, 403
HpyF3I CTNAG 2 cut(s) 177, 196
Hsp92II CATG 3 cut(s) 161, 275, 437
HspAI GCGC 2 cut(s) 236, 391
Kzo9I GATC 3 cut(s) 123, 261, 322
LguI GCTCTTC 2 cut(s) 58, 245
LmnI GCTCC 1 cut(s) 490
LweI GCATC 1 cut(s) 151
MaeI CTAG 2 cut(s) 165, 344
MaeIII GTNAC 1 cut(s) 310
MalI GATC 3 cut(s) 125, 263, 324
MboI GATC 3 cut(s) 123, 261, 322
MboII GAAGA 7 cut(s) 75, 145, 232, 349, 482, 485, 617
MluCI AATT 4 cut(s) 112, 135, 590, 595
MlyI GAGTC 1 cut(s) 37
MnlI CCTC 6 cut(s) 15, 175, 186, 301, 539, 541
MseI TTAA 1 cut(s) 36
MspR9I CCNGG 1 cut(s) 352
MvaI CCWGG 1 cut(s) 352
MwoI GCNNNNNNNGC 2 cut(s) 140, 403
NdeII GATC 3 cut(s) 123, 261, 322
NlaIII CATG 3 cut(s) 161, 275, 437
NlaIV GGNNCC 1 cut(s) 174
PciSI GCTCTTC 2 cut(s) 58, 245
PflMI CCANNNNNTGG 2 cut(s) 53, 277
PleI GAGTC 1 cut(s) 36
PpsI GAGTC 1 cut(s) 36
PpuMI RGGWCCY 1 cut(s) 172
Psp5II RGGWCCY 1 cut(s) 172
Psp6I CCWGG 1 cut(s) 350
PspEI GGTNACC 1 cut(s) 310
PspGI CCWGG 1 cut(s) 350
PspN4I GGNNCC 1 cut(s) 174
PspPI GGNCC 2 cut(s) 172, 565
PspPPI RGGWCCY 1 cut(s) 172
SapI GCTCTTC 2 cut(s) 58, 245
SaqAI TTAA 1 cut(s) 36
Sau3AI GATC 3 cut(s) 123, 261, 322
Sau96I GGNCC 2 cut(s) 172, 565
SchI GAGTC 1 cut(s) 37
ScrFI CCNGG 1 cut(s) 352
SetI ASST 6 cut(s) 42, 70, 197, 312, 356, 487
SfaNI GCATC 1 cut(s) 151
SinI GGWCC 1 cut(s) 172
Sse9I AATT 4 cut(s) 112, 135, 590, 595
SsiI CCGC 2 cut(s) 416, 634
SspMI CTAG 2 cut(s) 165, 344
StyD4I CCNGG 1 cut(s) 350
TaaI ACNGT 1 cut(s) 316
TaqI TCGA 1 cut(s) 468
TasI AATT 4 cut(s) 112, 135, 590, 595
Tru1I TTAA 1 cut(s) 36
Tru9I TTAA 1 cut(s) 36
TscAI CASTG 2 cut(s) 238, 617
TspDTI ATGAA 1 cut(s) 450
TspRI CASTG 2 cut(s) 238, 617
Van91I CCANNNNNTGG 2 cut(s) 53, 277
VpaK11BI GGWCC 1 cut(s) 172
XapI RAATTY 2 cut(s) 112, 590
XcmI CCANNNNNNNNNTGG 1 cut(s) 334
XspI CTAG 2 cut(s) 165, 344
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.