Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr4

Orthogroup ID

OG0000798

Physical Location & Seq

Genomic Coordinates Forward (+)

73134340 .. 73135473

Gene Structure 1134 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000021230

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1134 bp

ATGTCCTCAGGGTCTACAACATTCACAAAAGTTATCAACAAATGGAATACAGCCCTTATTGGTCTTATGACTTACTTCCGTGAAGCAGTTGTACATACAGTGGAGCTGTTGGATTTACTGGTCAAATGTGAAAATAAAATTCAGACCCGCATTAAGATTGGATTGAATTCAAAGATGCCAAGCAGGTTCCCACCTGTCATTTTTTACACGCCAAAAGAAATTGGAGGACTTGGCATGTTATCTATGGGTCACATATTGATTCCACAGAGTGACCTCAGATACTCTCAGCAGACAGAAATTGGTGTGACACACTTTAGGAGTGGAATGAGTCATGAAGAAGAGCAGCTGATTCCAAATCTTTACTGTTACATACAACCATGGGAGAGTGAGTTTATAGATTCACAGCGTGTTTGGGCAGAATATGCACTAAAAAGACGGGAAGCTATGGAACAGAATCGGCGTCTTACCCTTGAAGATTTGGAAGATTCATGGGATAGGGGAATACCACGCATAAATACATTGTTCCAGAAGGATCGACACACTTTAGCATATGACAAAGGGTGGAGAGTTCGCACAGATTTTAAGCAGTACCAGATCTTGAAGCAAAATCCTTTCTGGTGGACACACCAAAGGCATGATGGAAAATTGTGGAATTTGAATAATTATAGAACTGATGTGATCCAAGCTCTTGGAGGAGTTGAGGGAATACTTGAGCACACCTTATTCAAAGGAACATACTTCCCTACTTGGGAGGGTCTCTTCTGGGAGAAGGCATCTGGATTTGAGGAATCGATGAAGTATAAAAAGTTGACCAATGCCCAAAGATCTGGCCTCAACCAAATCCCCAATCGTAGGTTTACGCTTTGGTGGTCGCCTACCATAAATCGAGCCAATGTATATGTCGGTTTTCAAGTACAGCTGGATCTGACAGGAATCTTTATGCATGGGAAGATCCCAACCTTGAAGATATCGTTGATTCAGATATTCCGTGCACACTTGTGGCAGAAGATTCATGAAAGTGTTGTGATGGATCTTTGTCAGGTTTTCGATCAGGAGTTGGATGCTTTGGAAATTGAGACTCTGCAGAAGGAAACCATACATCCCAGGAAGAGTTACAAAATGAACAGCTCTTGA

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

378

Amino Acids

44.41

Weight (kDa)

9.02

Isoelectric Point (pI)

46.05

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
U5_2-snRNA_bdg	PF10597	1 - 124	3.4e-68	U5-snRNA binding site 2 of PrP8
U6-snRNA_bdg	PF10596	194 - 352	4.1e-90	U6-snRNA interacting domain of PrP8

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)
Acc36I	ACCTGC	1 cut(s)	174
AccI	GTMKAC	1 cut(s)	14
AciI	CCGC	1 cut(s)	148
AclWI	GGATC	5 cut(s)	540, 673, 930, 946, 1038
AcsI	RAATTY	3 cut(s)	138, 166, 652
AcyI	GRCGYC	1 cut(s)	460
AdeI	CACNNNGTG	2 cut(s)	269, 407
AfaI	GTAC	3 cut(s)	93, 590, 915
AfiI	CCNNNNNNNGG	2 cut(s)	748, 852
AgsI	TTSAA	8 cut(s)	166, 171, 473, 601, 658, 727, 911, 964
AjnI	CCWGG	1 cut(s)	1103
AleI	CACNNNNGTG	1 cut(s)	997
AluBI	AGCT	6 cut(s)	106, 346, 443, 686, 919, 1128
AluI	AGCT	6 cut(s)	106, 346, 443, 686, 919, 1128
Alw21I	GWGCWC	2 cut(s)	717, 994
Alw26I	GTCTC	2 cut(s)	761, 1070
Alw44I	GTGCAC	1 cut(s)	990
AlwI	GGATC	5 cut(s)	540, 673, 930, 946, 1038
AoxI	GGCC	1 cut(s)	829
ApaLI	GTGCAC	1 cut(s)	990
ApeKI	GCWGC	1 cut(s)	343
ApoI	RAATTY	3 cut(s)	138, 166, 652
AxyI	CCTNAGG	1 cut(s)	7
BaeGI	GKGCMC	1 cut(s)	994
BarI	GAAGNNNNNNTAC	2 cut(s)	75, 107
Bbv12I	GWGCWC	2 cut(s)	717, 994
BbvI	GCAGC	1 cut(s)	355
BccI	CCATC	2 cut(s)	632, 1021
BciT130I	CCWGG	1 cut(s)	1105
BcoDI	GTCTC	2 cut(s)	761, 1070
BfmI	CTRYAG	1 cut(s)	1082
BfuAI	ACCTGC	1 cut(s)	174
BglII	AGATCT	2 cut(s)	594, 824
BisI	GCNGC	1 cut(s)	344
BlsI	GCNGC	1 cut(s)	345
Bme1390I	CCNGG	1 cut(s)	1105
BmiI	GGNNCC	1 cut(s)	188
BmrFI	CCNGG	1 cut(s)	1105
BmsI	GCATC	3 cut(s)	165, 782, 1051
BpuEI	CTTGAG	1 cut(s)	731
Bsa29I	ATCGAT	1 cut(s)	791
BsaHI	GRCGYC	1 cut(s)	460
BsaI	GGTCTC	1 cut(s)	761
BsaJI	CCNNGG	2 cut(s)	377, 1103
BsaXI	ACNNNNNCTCC	2 cut(s)	374, 404
Bsc4I	CCNNNNNNNGG	2 cut(s)	748, 852
Bse1I	ACTGG	1 cut(s)	123
Bse21I	CCTNAGG	1 cut(s)	7
BseBI	CCWGG	1 cut(s)	1105
BseCI	ATCGAT	1 cut(s)	791
BseDI	CCNNGG	2 cut(s)	377, 1103
BseGI	GGATG	2 cut(s)	1066, 1099
BseLI	CCNNNNNNNGG	2 cut(s)	748, 852
BseMII	CTCAG	3 cut(s)	21, 289, 299
BseNI	ACTGG	1 cut(s)	123
BseRI	GAGGAG	1 cut(s)	708
BseSI	GKGCMC	1 cut(s)	994
BseXI	GCAGC	1 cut(s)	355
BshFI	GGCC	1 cut(s)	831
BshVI	ATCGAT	1 cut(s)	791
BsiHKAI	GWGCWC	2 cut(s)	717, 994
BslI	CCNNNNNNNGG	2 cut(s)	748, 852
BsmAI	GTCTC	2 cut(s)	761, 1070
BsnI	GGCC	1 cut(s)	831
Bso31I	GGTCTC	1 cut(s)	761
Bsp1286I	GDGCHC	2 cut(s)	717, 994
Bsp1407I	TGTACA	1 cut(s)	91
Bsp143I	GATC	8 cut(s)	532, 594, 678, 824, 922, 951, 1030, 1048
Bsp19I	CCATGG	1 cut(s)	377
BspACI	CCGC	1 cut(s)	148
BspANI	GGCC	1 cut(s)	831
BspCNI	CTCAG	3 cut(s)	20, 288, 298
BspDI	ATCGAT	1 cut(s)	791
BspHI	TCATGA	2 cut(s)	331, 1012
BspLI	GGNNCC	1 cut(s)	188
BspMAI	CTGCAG	1 cut(s)	1086
BspMI	ACCTGC	1 cut(s)	174
BspPI	GGATC	5 cut(s)	540, 673, 930, 946, 1038
BspQI	GCTCTTC	1 cut(s)	333
BspTNI	GGTCTC	1 cut(s)	761
BsrGI	TGTACA	1 cut(s)	91
BsrI	ACTGG	1 cut(s)	123
BssECI	CCNNGG	2 cut(s)	377, 1103
BssMI	GATC	8 cut(s)	532, 594, 678, 824, 922, 951, 1030, 1048
BssNI	GRCGYC	1 cut(s)	460
BssT1I	CCWWGG	1 cut(s)	377
Bst2UI	CCWGG	1 cut(s)	1105
Bst4CI	ACNGT	2 cut(s)	100, 365
Bst6I	CTCTTC	3 cut(s)	333, 764, 1103
BstACI	GRCGYC	1 cut(s)	460
BstAPI	GCANNNNNTGC	1 cut(s)	422
BstAUI	TGTACA	1 cut(s)	91
BstDEI	CTNAG	3 cut(s)	7, 275, 285
BstDSI	CCRYGG	1 cut(s)	377
BstF5I	GGATG	2 cut(s)	1066, 1099
BstKTI	GATC	8 cut(s)	535, 597, 681, 827, 925, 954, 1033, 1051
BstMAI	GTCTC	2 cut(s)	761, 1070
BstMBI	GATC	8 cut(s)	532, 594, 678, 824, 922, 951, 1030, 1048
BstMWI	GCNNNNNNNGC	1 cut(s)	422
BstNI	CCWGG	1 cut(s)	1105
BstNSI	RCATGY	1 cut(s)	238
BstSCI	CCNGG	1 cut(s)	1103
BstSFI	CTRYAG	1 cut(s)	1082
BstSLI	GKGCMC	1 cut(s)	994
BstV1I	GCAGC	1 cut(s)	355
BstX2I	RGATCY	5 cut(s)	594, 824, 922, 951, 1030
BstXI	CCANNNNNNTGG	2 cut(s)	689, 827
BstYI	RGATCY	5 cut(s)	594, 824, 922, 951, 1030
Bsu15I	ATCGAT	1 cut(s)	791
Bsu36I	CCTNAGG	1 cut(s)	7
BsuRI	GGCC	1 cut(s)	831
BsuTUI	ATCGAT	1 cut(s)	791
BtgI	CCRYGG	1 cut(s)	377
BtsCI	GGATG	2 cut(s)	1066, 1099
BtsIMutI	CAGTG	1 cut(s)	105
BveI	ACCTGC	1 cut(s)	174
CciI	TCATGA	2 cut(s)	331, 1012
ClaI	ATCGAT	1 cut(s)	791
CseI	GACGC	1 cut(s)	449
Csp6I	GTAC	3 cut(s)	92, 589, 914
CviAII	CATG	7 cut(s)	235, 332, 378, 489, 635, 944, 1013
CviJI	RGCY	9 cut(s)	53, 106, 346, 443, 686, 831, 890, 919, 1128
CviKI_1	RGCY	9 cut(s)	53, 106, 346, 443, 686, 831, 890, 919, 1128
CviQI	GTAC	3 cut(s)	92, 589, 914
DdeI	CTNAG	3 cut(s)	7, 275, 285
DpnI	GATC	8 cut(s)	534, 596, 680, 826, 924, 953, 1032, 1050
DpnII	GATC	8 cut(s)	532, 594, 678, 824, 922, 951, 1030, 1048
DraIII	CACNNNGTG	2 cut(s)	269, 407
Eam1104I	CTCTTC	3 cut(s)	333, 764, 1103
EarI	CTCTTC	3 cut(s)	333, 764, 1103
Eco130I	CCWWGG	1 cut(s)	377
Eco31I	GGTCTC	1 cut(s)	761
Eco32I	GATATC	1 cut(s)	969
Eco81I	CCTNAGG	1 cut(s)	7
EcoRI	GAATTC	1 cut(s)	166
EcoRII	CCWGG	1 cut(s)	1103
EcoRV	GATATC	1 cut(s)	969
EcoT14I	CCWWGG	1 cut(s)	377
EcoT22I	ATGCAT	1 cut(s)	945
ErhI	CCWWGG	1 cut(s)	377
FaeI	CATG	7 cut(s)	238, 335, 381, 492, 638, 947, 1016
FatI	CATG	7 cut(s)	234, 331, 377, 488, 634, 943, 1012
FauI	CCCGC	1 cut(s)	155
FauNDI	CATATG	1 cut(s)	550
FblI	GTMKAC	1 cut(s)	14
Fnu4HI	GCNGC	1 cut(s)	344
FokI	GGATG	2 cut(s)	1073, 1086
Fsp4HI	GCNGC	1 cut(s)	344
GluI	GCNGC	1 cut(s)	344
HaeIII	GGCC	1 cut(s)	831
HgaI	GACGC	1 cut(s)	449
Hin1I	GRCGYC	1 cut(s)	460
Hin1II	CATG	7 cut(s)	238, 335, 381, 492, 638, 947, 1016
HincII	GTYRAC	1 cut(s)	810
HindII	GTYRAC	1 cut(s)	810
Hpy166II	GTNNAC	5 cut(s)	15, 621, 810, 858, 992
Hpy188I	TCNGA	4 cut(s)	144, 278, 927, 981
Hpy188III	TCNNGA	7 cut(s)	332, 526, 598, 777, 1013, 1052, 1131
Hpy8I	GTNNAC	5 cut(s)	15, 621, 810, 858, 992
HpyAV	CCTTC	3 cut(s)	523, 763, 1081
HpyCH4III	ACNGT	2 cut(s)	100, 365
HpyCH4V	TGCA	4 cut(s)	425, 943, 992, 1084
HpyF10VI	GCNNNNNNNGC	1 cut(s)	422
HpyF3I	CTNAG	3 cut(s)	7, 275, 285
Hsp92I	GRCGYC	1 cut(s)	460
Hsp92II	CATG	7 cut(s)	238, 335, 381, 492, 638, 947, 1016
Kzo9I	GATC	8 cut(s)	532, 594, 678, 824, 922, 951, 1030, 1048
LguI	GCTCTTC	1 cut(s)	333
LmnI	GCTCC	1 cut(s)	103
Lsp1109I	GCAGC	1 cut(s)	355
LweI	GCATC	3 cut(s)	165, 782, 1051
MaeIII	GTNAC	5 cut(s)	248, 269, 304, 365, 1112
MalI	GATC	8 cut(s)	534, 596, 680, 826, 924, 953, 1032, 1050
MboI	GATC	8 cut(s)	532, 594, 678, 824, 922, 951, 1030, 1048
MboII	GAAGA	9 cut(s)	347, 350, 485, 494, 751, 961, 976, 1018, 1120
MflI	RGATCY	5 cut(s)	594, 824, 922, 951, 1030
MhlI	GDGCHC	2 cut(s)	717, 994
MluCI	AATT	8 cut(s)	138, 166, 219, 297, 644, 652, 661, 1071
MlyI	GAGTC	2 cut(s)	337, 1072
MmeI	TCCRAC	2 cut(s)	90, 1038
MnlI	CCTC	8 cut(s)	16, 218, 284, 686, 694, 745, 778, 842
Mph1103I	ATGCAT	1 cut(s)	945
MseI	TTAA	2 cut(s)	153, 582
MslI	CAYNNNNRTG	2 cut(s)	997, 1017
MspA1I	CMGCKG	2 cut(s)	346, 919
MspR9I	CCNGG	1 cut(s)	1105
MvaI	CCWGG	1 cut(s)	1105
MwoI	GCNNNNNNNGC	1 cut(s)	422
NcoI	CCATGG	1 cut(s)	377
NdeI	CATATG	1 cut(s)	550
NdeII	GATC	8 cut(s)	532, 594, 678, 824, 922, 951, 1030, 1048
NlaIII	CATG	7 cut(s)	238, 335, 381, 492, 638, 947, 1016
NlaIV	GGNNCC	1 cut(s)	188
NmuCI	GTSAC	3 cut(s)	248, 269, 304
NsiI	ATGCAT	1 cut(s)	945
NspI	RCATGY	1 cut(s)	238
OliI	CACNNNNGTG	1 cut(s)	997
PagI	TCATGA	2 cut(s)	331, 1012
PciSI	GCTCTTC	1 cut(s)	333
PfeI	GAWTC	9 cut(s)	259, 349, 398, 454, 485, 788, 933, 976, 1009
PkrI	GCNGC	1 cut(s)	345
PleI	GAGTC	2 cut(s)	336, 1072
PpsI	GAGTC	2 cut(s)	336, 1072
Psp6I	CCWGG	1 cut(s)	1103
PspGI	CCWGG	1 cut(s)	1103
PspN4I	GGNNCC	1 cut(s)	188
PstI	CTGCAG	1 cut(s)	1086
PsuI	RGATCY	5 cut(s)	594, 824, 922, 951, 1030
PvuII	CAGCTG	2 cut(s)	346, 919
RsaI	GTAC	3 cut(s)	93, 590, 915
RsaNI	GTAC	3 cut(s)	92, 589, 914
RseI	CAYNNNNRTG	2 cut(s)	997, 1017
SapI	GCTCTTC	1 cut(s)	333
SaqAI	TTAA	2 cut(s)	153, 582
SatI	GCNGC	1 cut(s)	344
Sau3AI	GATC	8 cut(s)	532, 594, 678, 824, 922, 951, 1030, 1048
SchI	GAGTC	2 cut(s)	337, 1072
ScrFI	CCNGG	1 cut(s)	1105
SduI	GDGCHC	2 cut(s)	717, 994
SfaNI	GCATC	3 cut(s)	165, 782, 1051
SfcI	CTRYAG	1 cut(s)	1082
SmiMI	CAYNNNNRTG	2 cut(s)	997, 1017
SmlI	CTYRAG	1 cut(s)	710
SmoI	CTYRAG	1 cut(s)	710
Sse9I	AATT	8 cut(s)	138, 166, 219, 297, 644, 652, 661, 1071
SsiI	CCGC	1 cut(s)	148
StyD4I	CCNGG	1 cut(s)	1103
StyI	CCWWGG	1 cut(s)	377
TaaI	ACNGT	2 cut(s)	100, 365
TaqI	TCGA	4 cut(s)	535, 791, 886, 1047
TasI	AATT	8 cut(s)	138, 166, 219, 297, 644, 652, 661, 1071
TatI	WGTACW	2 cut(s)	91, 913
TfiI	GAWTC	9 cut(s)	259, 349, 398, 454, 485, 788, 933, 976, 1009
Tru1I	TTAA	2 cut(s)	153, 582
Tru9I	TTAA	2 cut(s)	153, 582
TscAI	CASTG	1 cut(s)	105
TseFI	GTSAC	3 cut(s)	248, 269, 304
TseI	GCWGC	1 cut(s)	343
Tsp45I	GTSAC	3 cut(s)	248, 269, 304
TspDTI	ATGAA	5 cut(s)	348, 477, 809, 1001, 1029
TspGWI	ACGGA	2 cut(s)	68, 977
TspRI	CASTG	1 cut(s)	105
VneI	GTGCAC	1 cut(s)	990
XapI	RAATTY	3 cut(s)	138, 166, 652
XceI	RCATGY	1 cut(s)	238
XcmI	CCANNNNNNNNNTGG	1 cut(s)	635
XmiI	GTMKAC	1 cut(s)	14
Zsp2I	ATGCAT	1 cut(s)	945

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