Rh4AG109800

Pre-mRNA-splicing factor ATP-dependent RNA

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr4A
OG0000671
Physical Location & Seq
Reverse (-)
23797260 .. 23814456
17197 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh4AG109800.1

Sequence Viewer

Length: 840 bp
ATGTGGTCCTTGGCTACTAACCAGATAATGACTGTTGCTCTGCATGATGCCCCCATTAAAGACATGGCTGGGATCCCCAAGTTGAACCTCTTAGTCACTGGAAGCTTGGACAAGACTATAAAATTTATCAATCGGCATCTCCTCTCAATTGATGCTGCTGATAAATCTATGACATTGATTTTAGGTAGCAGAAGAGCTTTACCAATCTGGTATAAACTGGATGTTGTGAGTGCTGGAAAGAATTTTACACAGATCAGGAAGGCAATTACGGCGGGATTTTTCTTCCATGATGCTAGAAAGGACCCTCAGGAGGGGTATAGAACCTTAGTGGAGAACCAGCCAGTTTATATCCATCCAAGCAGTGCGCTCTTCCAGAGACAACCAGATTGGATCATCTACCATGAGTTGGTTATGACTACGAAGGAGTATATGCGTGAGGTAACCGTCGTTGATCCCAAATGGCTTGTGGAACTAGCACCCAGGTTCTTCAAAGTGGCTGACCCTACCAAGATGAGTAAGCGCAAGCGTCAAGAGCGTATTGAACCGCTATATGACAGATACCATGAACCAAACTCTTGGCGTATCCATTTTGGGGTCGAAGAAGAAATCACAGCTCCAGCAGTCTCCATCTGGCTCTCTATTTGGAAACATATTTGCCTCTGCACATCTGGTGCAGAGGAGAGAGAAACAAAGGGCCATTTCTTTTGCAAGGGGCAGAAATTCAATTCCATAAAGTTCCAGTGTTGTTTATTTCTTCACACCGCTTCTGTTTCAACTCATGAAAAAATCTTCCAAAACCTTTTGCACCATATCAGATTGGAGATTGAACAAGGTCCCTAA
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

279

Amino Acids

32.4

Weight (kDa)

9.11

Isoelectric Point (pI)

37.77

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
OB_NTP_bind PF07717 85 - 161 1.6e-26 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) 406
AciI CCGC 3 cut(s) 272, 545, 762
AclWI GGATC 4 cut(s) 67, 80, 398, 446
AcsI RAATTY 3 cut(s) 122, 241, 719
AfiI CCNNNNNNNGG 4 cut(s) 310, 311, 406, 592
AgsI TTSAA 6 cut(s) 85, 490, 542, 724, 774, 827
AjnI CCWGG 1 cut(s) 479
AluBI AGCT 3 cut(s) 105, 197, 614
AluI AGCT 3 cut(s) 105, 197, 614
Alw26I GTCTC 2 cut(s) 370, 628
AlwI GGATC 4 cut(s) 67, 80, 398, 446
AoxI GGCC 1 cut(s) 694
ApeKI GCWGC 1 cut(s) 155
ApoI RAATTY 3 cut(s) 122, 241, 719
AspLEI GCGC 2 cut(s) 367, 522
AspS9I GGNCC 4 cut(s) 6, 301, 694, 833
AvaII GGWCC 3 cut(s) 6, 301, 833
AxyI CCTNAGG 1 cut(s) 306
BamHI GGATCC 1 cut(s) 72
BbvI GCAGC 1 cut(s) 142
BccI CCATC 2 cut(s) 360, 635
BceAI ACGGC 1 cut(s) 285
BciT130I CCWGG 1 cut(s) 481
BciVI GTATCC 1 cut(s) 593
BcoDI GTCTC 2 cut(s) 370, 628
BfaI CTAG 2 cut(s) 294, 473
BfuI GTATCC 1 cut(s) 593
BisI GCNGC 1 cut(s) 156
BlsI GCNGC 1 cut(s) 157
Bme1390I CCNGG 1 cut(s) 481
Bme18I GGWCC 3 cut(s) 6, 301, 833
BmgT120I GGNCC 4 cut(s) 6, 301, 694, 833
BmiI GGNNCC 3 cut(s) 74, 303, 835
BmrFI CCNGG 1 cut(s) 481
BmsI GCATC 4 cut(s) 37, 142, 145, 280
BpmI CTGGAG 1 cut(s) 600
BsaJI CCNNGG 2 cut(s) 9, 479
Bsc4I CCNNNNNNNGG 4 cut(s) 310, 311, 406, 592
Bse1I ACTGG 4 cut(s) 103, 222, 341, 739
Bse21I CCTNAGG 1 cut(s) 306
BseBI CCWGG 1 cut(s) 481
BseDI CCNNGG 2 cut(s) 9, 479
BseGI GGATG 2 cut(s) 226, 352
BseLI CCNNNNNNNGG 4 cut(s) 310, 311, 406, 592
BseMII CTCAG 1 cut(s) 320
BseNI ACTGG 4 cut(s) 103, 222, 341, 739
BseRI GAGGAG 2 cut(s) 131, 692
BseXI GCAGC 1 cut(s) 142
BseYI CCCAGC 1 cut(s) 68
BsgI GTGCAG 2 cut(s) 646, 693
BshFI GGCC 1 cut(s) 696
BslFI GGGAC 1 cut(s) 819
BslI CCNNNNNNNGG 4 cut(s) 310, 311, 406, 592
BsmAI GTCTC 2 cut(s) 370, 628
BsmFI GGGAC 1 cut(s) 819
BsnI GGCC 1 cut(s) 696
Bsp143I GATC 4 cut(s) 72, 252, 390, 451
BspACI CCGC 3 cut(s) 272, 545, 762
BspANI GGCC 1 cut(s) 696
BspCNI CTCAG 1 cut(s) 319
BspHI TCATGA 1 cut(s) 778
BspLI GGNNCC 3 cut(s) 74, 303, 835
BspPI GGATC 4 cut(s) 67, 80, 398, 446
BspQI GCTCTTC 2 cut(s) 187, 374
BsrI ACTGG 4 cut(s) 103, 222, 341, 739
BssECI CCNNGG 2 cut(s) 9, 479
BssMI GATC 4 cut(s) 72, 252, 390, 451
BssT1I CCWWGG 1 cut(s) 9
Bst2UI CCWGG 1 cut(s) 481
Bst4CI ACNGT 2 cut(s) 34, 445
Bst6I CTCTTC 2 cut(s) 187, 374
BstC8I GCNNGC 1 cut(s) 524
BstDEI CTNAG 3 cut(s) 91, 306, 325
BstEII GGTNACC 1 cut(s) 439
BstF5I GGATG 2 cut(s) 226, 352
BstHHI GCGC 2 cut(s) 367, 522
BstKTI GATC 4 cut(s) 75, 255, 393, 454
BstMAI GTCTC 2 cut(s) 370, 628
BstMBI GATC 4 cut(s) 72, 252, 390, 451
BstMWI GCNNNNNNNGC 2 cut(s) 269, 532
BstNI CCWGG 1 cut(s) 481
BstPI GGTNACC 1 cut(s) 439
BstSCI CCNGG 1 cut(s) 479
BstV1I GCAGC 1 cut(s) 142
BstX2I RGATCY 1 cut(s) 72
BstXI CCANNNNNNTGG 1 cut(s) 576
BstYI RGATCY 1 cut(s) 72
Bsu36I CCTNAGG 1 cut(s) 306
BsuI GTATCC 1 cut(s) 593
BsuRI GGCC 1 cut(s) 696
BtsCI GGATG 2 cut(s) 226, 352
BtsI GCAGTG 1 cut(s) 367
BtsIMutI CAGTG 3 cut(s) 96, 367, 746
Cac8I GCNNGC 1 cut(s) 524
CciI TCATGA 1 cut(s) 778
CfoI GCGC 2 cut(s) 367, 522
Cfr13I GGNCC 4 cut(s) 6, 301, 694, 833
CseI GACGC 1 cut(s) 515
CviAII CATG 6 cut(s) 44, 64, 287, 401, 563, 779
DdeI CTNAG 3 cut(s) 91, 306, 325
DpnI GATC 4 cut(s) 74, 254, 392, 453
DpnII GATC 4 cut(s) 72, 252, 390, 451
Eam1104I CTCTTC 2 cut(s) 187, 374
EarI CTCTTC 2 cut(s) 187, 374
Eco130I CCWWGG 1 cut(s) 9
Eco47I GGWCC 3 cut(s) 6, 301, 833
Eco81I CCTNAGG 1 cut(s) 306
Eco91I GGTNACC 1 cut(s) 439
EcoO109I RGGNCCY 2 cut(s) 301, 833
EcoO65I GGTNACC 1 cut(s) 439
EcoRII CCWGG 1 cut(s) 479
EcoT14I CCWWGG 1 cut(s) 9
ErhI CCWWGG 1 cut(s) 9
FaeI CATG 6 cut(s) 47, 67, 290, 404, 566, 782
FaqI GGGAC 1 cut(s) 819
FatI CATG 6 cut(s) 43, 63, 286, 400, 562, 778
FauI CCCGC 1 cut(s) 265
Fnu4HI GCNGC 1 cut(s) 156
FokI GGATG 2 cut(s) 233, 339
Fsp4HI GCNGC 1 cut(s) 156
FspBI CTAG 2 cut(s) 294, 473
GlaI GCGC 2 cut(s) 366, 521
GluI GCNGC 1 cut(s) 156
GsaI CCCAGC 1 cut(s) 72
GsuI CTGGAG 1 cut(s) 600
HaeIII GGCC 1 cut(s) 696
HgaI GACGC 1 cut(s) 515
HhaI GCGC 2 cut(s) 367, 522
Hin1II CATG 6 cut(s) 47, 67, 290, 404, 566, 782
Hin6I GCGC 2 cut(s) 365, 520
HinP1I GCGC 2 cut(s) 365, 520
HindIII AAGCTT 1 cut(s) 103
Hpy188I TCNGA 1 cut(s) 815
Hpy188III TCNNGA 5 cut(s) 256, 308, 373, 530, 779
Hpy99I CGWCG 1 cut(s) 449
HpyAV CCTTC 2 cut(s) 253, 415
HpyCH4III ACNGT 2 cut(s) 34, 445
HpyCH4V TGCA 5 cut(s) 43, 663, 674, 708, 805
HpyF10VI GCNNNNNNNGC 2 cut(s) 269, 532
HpyF3I CTNAG 3 cut(s) 91, 306, 325
Hsp92II CATG 6 cut(s) 47, 67, 290, 404, 566, 782
HspAI GCGC 2 cut(s) 365, 520
Kzo9I GATC 4 cut(s) 72, 252, 390, 451
LguI GCTCTTC 2 cut(s) 187, 374
LmnI GCTCC 1 cut(s) 619
Lsp1109I GCAGC 1 cut(s) 142
LweI GCATC 4 cut(s) 37, 142, 145, 280
MaeI CTAG 2 cut(s) 294, 473
MaeIII GTNAC 2 cut(s) 94, 439
MalI GATC 4 cut(s) 74, 254, 392, 453
MboI GATC 4 cut(s) 72, 252, 390, 451
MboII GAAGA 8 cut(s) 204, 274, 361, 478, 611, 614, 746, 781
MfeI CAATTG 1 cut(s) 147
MflI RGATCY 1 cut(s) 72
MluCI AATT 6 cut(s) 122, 147, 241, 264, 719, 724
MnlI CCTC 7 cut(s) 98, 152, 304, 315, 430, 668, 670
MseI TTAA 1 cut(s) 57
MspR9I CCNGG 1 cut(s) 481
MunI CAATTG 1 cut(s) 147
MvaI CCWGG 1 cut(s) 481
MwoI GCNNNNNNNGC 2 cut(s) 269, 532
NdeII GATC 4 cut(s) 72, 252, 390, 451
NlaIII CATG 6 cut(s) 47, 67, 290, 404, 566, 782
NlaIV GGNNCC 3 cut(s) 74, 303, 835
NmuCI GTSAC 1 cut(s) 94
PagI TCATGA 1 cut(s) 778
PciSI GCTCTTC 2 cut(s) 187, 374
PflMI CCANNNNNTGG 1 cut(s) 406
PkrI GCNGC 1 cut(s) 157
PpuMI RGGWCCY 2 cut(s) 301, 833
Psp5II RGGWCCY 2 cut(s) 301, 833
Psp6I CCWGG 1 cut(s) 479
PspEI GGTNACC 1 cut(s) 439
PspFI CCCAGC 1 cut(s) 68
PspGI CCWGG 1 cut(s) 479
PspN4I GGNNCC 3 cut(s) 74, 303, 835
PspPI GGNCC 4 cut(s) 6, 301, 694, 833
PspPPI RGGWCCY 2 cut(s) 301, 833
PsuI RGATCY 1 cut(s) 72
SapI GCTCTTC 2 cut(s) 187, 374
SaqAI TTAA 1 cut(s) 57
SatI GCNGC 1 cut(s) 156
Sau3AI GATC 4 cut(s) 72, 252, 390, 451
Sau96I GGNCC 4 cut(s) 6, 301, 694, 833
ScrFI CCNGG 1 cut(s) 481
SfaNI GCATC 4 cut(s) 37, 142, 145, 280
SinI GGWCC 3 cut(s) 6, 301, 833
Sse9I AATT 6 cut(s) 122, 147, 241, 264, 719, 724
SsiI CCGC 3 cut(s) 272, 545, 762
SspMI CTAG 2 cut(s) 294, 473
StyD4I CCNGG 1 cut(s) 479
StyI CCWWGG 1 cut(s) 9
TaaI ACNGT 2 cut(s) 34, 445
TaqI TCGA 1 cut(s) 597
TasI AATT 6 cut(s) 122, 147, 241, 264, 719, 724
Tru1I TTAA 1 cut(s) 57
Tru9I TTAA 1 cut(s) 57
TscAI CASTG 3 cut(s) 103, 367, 746
TseFI GTSAC 1 cut(s) 94
TseI GCWGC 1 cut(s) 155
Tsp45I GTSAC 1 cut(s) 94
TspDTI ATGAA 2 cut(s) 579, 795
TspRI CASTG 3 cut(s) 103, 367, 746
Van91I CCANNNNNTGG 1 cut(s) 406
VpaK11BI GGWCC 3 cut(s) 6, 301, 833
XapI RAATTY 3 cut(s) 122, 241, 719
XcmI CCANNNNNNNNNTGG 2 cut(s) 61, 463
XspI CTAG 2 cut(s) 294, 473
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.