Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1A

Orthogroup ID

OG0000798

Physical Location & Seq

Genomic Coordinates Forward (+)

35896115 .. 35911965

Gene Structure 15851 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1AG188300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 549 bp

ATGTTCAATCCGAACACGGGGAAGCTGTTCTTGAAGATCAACATCTACACTGCGAACATAACACTAGAGGTAGCAGCAGCTTTGCGTTCATTACCAGTTGGAGAACATCCAAAGAAAATATTTCTGGACGTGAGTAAGGGAATGCTTGATCAGGATTTTCCTCATATAGTCATGGAAGGAAGTGAGCTCAAGCTTCCCTTCCAGGCTTGCCTTAAGATTGAGAAGTTTATTGATCAGATGAAATTGAAGGCTAATAACACTGATCAGCCACAGGAGGTTAATCTTTTCAGCTTCAACATCTATGATAATTGGTTGAAGAGAATTGTATCCTACACTGCGTTCAACCGGATTGTTCTGATTCTTCGTGCGCTTGATGTGAACAATGAGAAGGCAAAGGAGTTATTAATGCCAGCTGTCCCAAAAGCTAAGCCAGACCACATTTGGCCCTCTCTTTCTGAGGCACAGTGGATAGAGGTTGAGTGTATGGAGAATTACCACGGATCAATAACCAGCCTCTACAGAATTCCATTTCAGAACAGAAATCCCTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000244 GO:0000375 GO:0000377 GO:0000386 GO:0000387 GO:0000398 GO:0002237 GO:0003674 GO:0003676 GO:0003723 GO:0003824 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005681 GO:0005682 GO:0005684 GO:0006139 GO:0006396 GO:0006397 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0008380 GO:0009605 GO:0009607 GO:0009617 GO:0009987 GO:0010033 GO:0010467 GO:0016043 GO:0016070 GO:0016071 GO:0017069 GO:0017070 GO:0022607 GO:0022613 GO:0022618 GO:0030532 GO:0030619 GO:0030620 GO:0030623 GO:0031593 GO:0032496 GO:0032991 GO:0033993 GO:0034097 GO:0034612 GO:0034622 GO:0034641 GO:0036002 GO:0042221 GO:0043170 GO:0043207 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043933 GO:0044085 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0046483 GO:0046540 GO:0050896 GO:0051704 GO:0051707 GO:0051716 GO:0065003 GO:0070530 GO:0070887 GO:0071005 GO:0071007 GO:0071011 GO:0071013 GO:0071216 GO:0071219 GO:0071222 GO:0071310 GO:0071345 GO:0071356 GO:0071396 GO:0071704 GO:0071826 GO:0071840 GO:0090304 GO:0097157 GO:0097159 GO:0097525 GO:0097526 GO:0120114 GO:0140030 GO:0140098 GO:1901360 GO:1901363 GO:1901700 GO:1901701 GO:1902494 GO:1990904

KEGG Pathways

Metabolic & Signaling

ko03040 map03040

Pfam Domains

Protein Families

JAB PRO8NT PROCN PROCT PRP8_domainIV RRM_4 U5_2-snRNA_bdg U6-snRNA_bdg

Protein Analysis

182

Amino Acids

20.99

Weight (kDa)

7.76

Isoelectric Point (pI)

48.49

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PRP8_domainIV	PF12134	2 - 161	7.5e-39	PRP8 domain IV core

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0000798)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G80070 AT4G38780
fragaria_vesca	FvH4_6g29610 FvH4_6g43880
malus_domestica	MD00G1072300.v1.1 MD09G1102200.v1.1 MD09G1102300.v1.1 MD09G1102400.v1.1 MD09G1127100.v1.1 MD09G1127300.v1.1 MD17G1212800.v1.1
prunus_persica	Prupe.3G088200_v2.0.a1 Prupe.3G223400_v2.0.a1 Prupe.7G079800_v2.0.a1
pyrus_communis	pycom12419g00050 pycom12419g00060 pycom12419g00070 pycom12419g00080 pycom17g21760 pycom17g21770 pycom17g21780
rosa_chinensis	RchiOBHm_Chr2g0122691 RchiOBHm_Chr2g0135211 RchiOBHm_Chr2g0160631
rosa_laevigata	RLG00000019448 RLG00000021228 RLG00000021230 RLG00000021231 RLG00000028917 RLG00000028918
rosa_multiflora	Rmu_co8242217.1_g000001 Rmu_co8276149.1_g000001 Rmu_sc0000019.1_g000004 Rmu_sc0000674.1_g000029 Rmu_sc0006535.1_g000005 Rmu_sc0011943.1_g000004 Rmu_sc0018128.1_g000001 Rmu_sc0032732.1_g000001 Rmu_sc0040913.1_g000001 Rmu_sc0040914.1_g000001
rosa_roxburghii	Rroxscaffold_1G00037020 Rroxscaffold_2G00089540 Rroxscaffold_2G00109400 Rroxscaffold_2G00121310 Rroxscaffold_4G00310000
rosa_rugosa	Rorug01G0172000 Rorug02G0323800 Rorug02G0484400 Rorug02G0484500 Rorug02G0484600
rosa_samantha	Rh1AG188300 Rh1BG154600 Rh1CG174100 Rh1DG068500 Rh2AG309100 Rh2AG371100 Rh2AG549500 Rh2AG549600 Rh2BG307900 Rh2BG380400 Rh2BG563900 Rh2CG286100 Rh2CG359700 Rh2CG534200 Rh2DG397000 Rh2DG572900 Rh2DG573000
rosa_wichuraiana	Rw2G030580 Rw2G045520

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AclWI	GGATC	1 cut(s)	508
AcsI	RAATTY	1 cut(s)	522
AfiI	CCNNNNNNNGG	1 cut(s)	17
AflII	CTTAAG	1 cut(s)	212
AgsI	TTSAA	6 cut(s)	7, 34, 247, 295, 316, 343
AjiI	CACGTC	1 cut(s)	130
AjnI	CCWGG	1 cut(s)	201
AluBI	AGCT	7 cut(s)	25, 80, 187, 193, 291, 413, 425
AluI	AGCT	7 cut(s)	25, 80, 187, 193, 291, 413, 425
Alw21I	GWGCWC	1 cut(s)	189
AlwI	GGATC	1 cut(s)	508
AoxI	GGCC	1 cut(s)	443
ApeKI	GCWGC	2 cut(s)	74, 77
ApoI	RAATTY	1 cut(s)	522
AseI	ATTAAT	1 cut(s)	404
Asp700I	GAANNNNTTC	1 cut(s)	26
AspLEI	GCGC	1 cut(s)	370
AspS9I	GGNCC	1 cut(s)	444
BanII	GRGCYC	1 cut(s)	189
Bbv12I	GWGCWC	1 cut(s)	189
BbvI	GCAGC	2 cut(s)	86, 89
BciT130I	CCWGG	1 cut(s)	203
BciVI	GTATCC	1 cut(s)	337
BclI	TGATCA	3 cut(s)	148, 232, 262
BfaI	CTAG	2 cut(s)	65, 547
BfmI	CTRYAG	1 cut(s)	517
BfrI	CTTAAG	1 cut(s)	212
BfuI	GTATCC	1 cut(s)	337
BisI	GCNGC	2 cut(s)	75, 78
BlpI	GCTNAGC	1 cut(s)	426
BlsI	GCNGC	2 cut(s)	76, 79
Bme1390I	CCNGG	1 cut(s)	203
BmgBI	CACGTC	1 cut(s)	130
BmgT120I	GGNCC	1 cut(s)	444
BmrFI	CCNGG	1 cut(s)	203
Bpu1102I	GCTNAGC	1 cut(s)	426
BpuEI	CTTGAG	1 cut(s)	173
BsaBI	GATNNNNATC	1 cut(s)	41
BsaJI	CCNNGG	1 cut(s)	496
BsaWI	WCCGGW	1 cut(s)	345
Bsc4I	CCNNNNNNNGG	1 cut(s)	17
Bse1I	ACTGG	1 cut(s)	95
Bse8I	GATNNNNATC	1 cut(s)	41
BseBI	CCWGG	1 cut(s)	203
BseDI	CCNNGG	1 cut(s)	496
BseGI	GGATG	1 cut(s)	106
BseJI	GATNNNNATC	1 cut(s)	41
BseLI	CCNNNNNNNGG	1 cut(s)	17
BseMII	CTCAG	1 cut(s)	447
BseNI	ACTGG	1 cut(s)	95
BseXI	GCAGC	2 cut(s)	86, 89
BshFI	GGCC	1 cut(s)	445
BsiHKAI	GWGCWC	1 cut(s)	189
BsiSI	CCGG	1 cut(s)	346
BslFI	GGGAC	1 cut(s)	401
BslI	CCNNNNNNNGG	1 cut(s)	17
BsmFI	GGGAC	1 cut(s)	401
BsmI	GAATGC	1 cut(s)	147
BsnI	GGCC	1 cut(s)	445
Bsp1286I	GDGCHC	1 cut(s)	189
Bsp143I	GATC	5 cut(s)	36, 148, 232, 262, 500
Bsp1720I	GCTNAGC	1 cut(s)	426
BspANI	GGCC	1 cut(s)	445
BspCNI	CTCAG	1 cut(s)	448
BspPI	GGATC	1 cut(s)	508
BspTI	CTTAAG	1 cut(s)	212
BsrI	ACTGG	1 cut(s)	95
BssECI	CCNNGG	1 cut(s)	496
BssMI	GATC	5 cut(s)	36, 148, 232, 262, 500
Bst2UI	CCWGG	1 cut(s)	203
Bst4CI	ACNGT	1 cut(s)	465
Bst6I	CTCTTC	1 cut(s)	311
BstAFI	CTTAAG	1 cut(s)	212
BstC8I	GCNNGC	2 cut(s)	208, 411
BstDEI	CTNAG	2 cut(s)	426, 456
BstDSI	CCRYGG	1 cut(s)	496
BstF5I	GGATG	1 cut(s)	106
BstHHI	GCGC	1 cut(s)	370
BstKTI	GATC	5 cut(s)	39, 151, 235, 265, 503
BstMBI	GATC	5 cut(s)	36, 148, 232, 262, 500
BstNI	CCWGG	1 cut(s)	203
BstSCI	CCNGG	1 cut(s)	201
BstSFI	CTRYAG	1 cut(s)	517
BstV1I	GCAGC	2 cut(s)	86, 89
BsuI	GTATCC	1 cut(s)	337
BsuRI	GGCC	1 cut(s)	445
BtgI	CCRYGG	1 cut(s)	496
BtrI	CACGTC	1 cut(s)	130
BtsCI	GGATG	1 cut(s)	106
BtsI	GCAGTG	2 cut(s)	48, 333
BtsIMutI	CAGTG	4 cut(s)	48, 258, 333, 470
Cac8I	GCNNGC	2 cut(s)	208, 411
CfoI	GCGC	1 cut(s)	370
Cfr13I	GGNCC	1 cut(s)	444
CviAII	CATG	1 cut(s)	172
DdeI	CTNAG	2 cut(s)	426, 456
DpnI	GATC	5 cut(s)	38, 150, 234, 264, 502
DpnII	GATC	5 cut(s)	36, 148, 232, 262, 500
Eam1104I	CTCTTC	1 cut(s)	311
EarI	CTCTTC	1 cut(s)	311
Ecl136II	GAGCTC	1 cut(s)	187
Eco24I	GRGCYC	1 cut(s)	189
Eco53kI	GAGCTC	1 cut(s)	187
EcoICRI	GAGCTC	1 cut(s)	187
EcoRI	GAATTC	1 cut(s)	522
EcoRII	CCWGG	1 cut(s)	201
EcoT38I	GRGCYC	1 cut(s)	189
FaeI	CATG	1 cut(s)	175
FaiI	YATR	6 cut(s)	59, 165, 167, 173, 303, 485
FalI	AAGNNNNNCTT	4 cut(s)	14, 46, 182, 214
FaqI	GGGAC	1 cut(s)	401
FatI	CATG	1 cut(s)	171
FbaI	TGATCA	3 cut(s)	148, 232, 262
Fnu4HI	GCNGC	2 cut(s)	75, 78
FokI	GGATG	1 cut(s)	93
FriOI	GRGCYC	1 cut(s)	189
Fsp4HI	GCNGC	2 cut(s)	75, 78
FspBI	CTAG	2 cut(s)	65, 547
GlaI	GCGC	1 cut(s)	369
GluI	GCNGC	2 cut(s)	75, 78
HaeIII	GGCC	1 cut(s)	445
HapII	CCGG	1 cut(s)	346
HhaI	GCGC	1 cut(s)	370
Hin1II	CATG	1 cut(s)	175
Hin6I	GCGC	1 cut(s)	368
HinP1I	GCGC	1 cut(s)	368
HindIII	AAGCTT	1 cut(s)	191
HinfI	GANTC	1 cut(s)	358
HpaII	CCGG	1 cut(s)	346
Hpy166II	GTNNAC	1 cut(s)	379
Hpy188I	TCNGA	5 cut(s)	12, 237, 357, 457, 534
Hpy188III	TCNNGA	3 cut(s)	31, 125, 152
Hpy8I	GTNNAC	1 cut(s)	379
HpyAV	CCTTC	4 cut(s)	170, 208, 241, 382
HpyCH4III	ACNGT	1 cut(s)	465
HpyCH4IV	ACGT	1 cut(s)	129
HpyF3I	CTNAG	2 cut(s)	426, 456
HpySE526I	ACGT	1 cut(s)	129
Hsp92II	CATG	1 cut(s)	175
HspAI	GCGC	1 cut(s)	368
Ksp22I	TGATCA	3 cut(s)	148, 232, 262
Kzo9I	GATC	5 cut(s)	36, 148, 232, 262, 500
Lsp1109I	GCAGC	2 cut(s)	86, 89
MaeI	CTAG	2 cut(s)	65, 547
MaeII	ACGT	1 cut(s)	129
MalI	GATC	5 cut(s)	38, 150, 234, 264, 502
MboI	GATC	5 cut(s)	36, 148, 232, 262, 500
MboII	GAAGA	3 cut(s)	46, 328, 353
MhlI	GDGCHC	1 cut(s)	189
MluCI	AATT	5 cut(s)	242, 307, 321, 490, 522
MmeI	TCCRAC	1 cut(s)	79
MnlI	CCTC	7 cut(s)	61, 171, 268, 451, 457, 466, 524
MroXI	GAANNNNTTC	1 cut(s)	26
MseI	TTAA	3 cut(s)	213, 279, 404
MspA1I	CMGCKG	1 cut(s)	413
MspCI	CTTAAG	1 cut(s)	212
MspI	CCGG	1 cut(s)	346
MspR9I	CCNGG	1 cut(s)	203
Mva1269I	GAATGC	1 cut(s)	147
MvaI	CCWGG	1 cut(s)	203
NdeII	GATC	5 cut(s)	36, 148, 232, 262, 500
NlaIII	CATG	1 cut(s)	175
PctI	GAATGC	1 cut(s)	147
PdmI	GAANNNNTTC	1 cut(s)	26
PfeI	GAWTC	1 cut(s)	358
PkrI	GCNGC	2 cut(s)	76, 79
PshBI	ATTAAT	1 cut(s)	404
Psp124BI	GAGCTC	1 cut(s)	189
Psp6I	CCWGG	1 cut(s)	201
PspGI	CCWGG	1 cut(s)	201
PspPI	GGNCC	1 cut(s)	444
PvuII	CAGCTG	1 cut(s)	413
SacI	GAGCTC	1 cut(s)	189
SaqAI	TTAA	3 cut(s)	213, 279, 404
SatI	GCNGC	2 cut(s)	75, 78
Sau3AI	GATC	5 cut(s)	36, 148, 232, 262, 500
Sau96I	GGNCC	1 cut(s)	444
ScrFI	CCNGG	1 cut(s)	203
SduI	GDGCHC	1 cut(s)	189
SfcI	CTRYAG	1 cut(s)	517
SmlI	CTYRAG	2 cut(s)	188, 212
SmoI	CTYRAG	2 cut(s)	188, 212
Sse9I	AATT	5 cut(s)	242, 307, 321, 490, 522
SspI	AATATT	1 cut(s)	120
SspMI	CTAG	2 cut(s)	65, 547
SstI	GAGCTC	1 cut(s)	189
StyD4I	CCNGG	1 cut(s)	201
TaaI	ACNGT	1 cut(s)	465
TaiI	ACGT	1 cut(s)	132
TasI	AATT	5 cut(s)	242, 307, 321, 490, 522
TfiI	GAWTC	1 cut(s)	358
Tru1I	TTAA	3 cut(s)	213, 279, 404
Tru9I	TTAA	3 cut(s)	213, 279, 404
TscAI	CASTG	4 cut(s)	55, 265, 340, 470
TseI	GCWGC	2 cut(s)	74, 77
TspDTI	ATGAA	2 cut(s)	78, 254
TspGWI	ACGGA	1 cut(s)	513
TspRI	CASTG	4 cut(s)	55, 265, 340, 470
Vha464I	CTTAAG	1 cut(s)	212
VspI	ATTAAT	1 cut(s)	404
XapI	RAATTY	1 cut(s)	522
XcmI	CCANNNNNNNNNTGG	1 cut(s)	438
XmnI	GAANNNNTTC	1 cut(s)	26
XspI	CTAG	2 cut(s)	65, 547

Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.