Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Chr1

Orthogroup ID

OG0001809

Physical Location & Seq

Genomic Coordinates Forward (+)

38573609 .. 38577292

Gene Structure 3684 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw1G017440.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1167 bp

ATGGCGACCATGAACCCGTTTGATTTGTTGGGCGACGATGATGCCGAGGACCCTTCGCTGCTGGTCGCGGCTCACCAGCAGAAGCTCGCTGCCGCACCCAAGAAAGCTCAGGCTCAGCCCAACAAGCCCGGTCTCGACGCCAAGCCCGCCAAGTTGCCTTCCAAGCCTGCCCCTCCTTCTCAGGCTGTGAGGGATTCAAAGAATGAAGCTGGTCGTGGAGGCCGTGGGGGTGGACGTGGATATGGGCGTGGCCGTGGCGGTGGTGGCTACAATCGTGATTCTGCCAATAATGAAAACAACAGTGGGTACAATCGTGAATCAGCCCCTGCTGGTCAGGGTGCTTTTGAGGATGCACCTTCCAAAAGGCGTTTCTCTGGTGGCGATGGTGATGGAAGGCCATCTGAAAGGCGTGGCTATGGGGGAGATGGAGAAGGGAGGACGGCTGAAAGGCGTAGCTATGGTGGACCACGCGGTTCTTACCATGGTGGTCGCCGCGGTGGTTTTGGGAATGGGGAAGTTGGTGATGAGGAGCGCCCGCGGAGGATCCATGAACGTCGTAGTGGGACTGGACGCGGAAATGAACTCAAGCGTGAAGGTTCTGGTCGTGGAAACTGGGGATCACAAACTGATGAATTTCCTGAGGGGACTGAAGACGGAGTCAATGCAACTGAAAAAATTTTGGGCGAAGAAAAGCCTGTGGGAGAGGTAGATGCAGCAGATGACAGCAAAGAGACCCCTGCCAATGAAGCTGAAGAAAAGGAACCTGAGGAGAAGGAAATGACACTTGAAGAGTATGAGAAGGTGCTTGAAGAGAAAAGGAAGGCCCTGCAGGCACTTAAGACTGAAGAAAGAAAGGTTGATACTAAGGAATTTGAATCACTGCAACAGCTTTCAAACAAGAAAGGGAATGATGATATCTTCATTAAATTGGGATCTGACAAGGATAAGAAGAAAGAGTCTGCTGAGAAGGAAGAAAGAGCCAAAAAGTCTGTCAGCATCAATGAGTTCTTGAAGCCAGCAGAAGGAGACAGGTTCTCTTACCCATCTCGTGGCCGTGGCCGTGGTCGTGGTTCCAGGGGAGGGTTTAGCAGCAACTACTCCCAAAGCAGTGTGGAAGCCCCACGAATTGAAGATCCTTCTCACTTCCCAACCTTGGGTGGCAAGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

HABP4_PAI-RBP1 Stm1_N

Protein Analysis

388

Amino Acids

41.94

Weight (kDa)

6.55

Isoelectric Point (pI)

51.45

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Stm1_N	PF09598	1 - 77	5e-23	Stm1
HABP4_PAI-RBP1	PF04774	179 - 286	6.4e-26	Hyaluronan / mRNA binding family

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

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0001809)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G16830 AT4G16830 AT4G16830
fragaria_vesca	FvH4_5g20020 FvH4_5g20020 FvH4_5g20020 FvH4_7g10280
malus_domestica	MD02G1213500.v1.1 MD04G1050100.v1.1 MD06G1049800.v1.1 MD07G1109500.v1.1
prunus_persica	Prupe.2G132500_v2.0.a1 Prupe.5G060200_v2.0.a1 Prupe.5G060200_v2.0.a1 Prupe.5G060200_v2.0.a1
pyrus_communis	pycom04g04410 pycom06g04220 pycom07g09400 pycom12646g00030
rosa_chinensis	RchiOBHm_Chr1g0348031 RchiOBHm_Chr7g0204831 RchiOBHm_Chr7g0204851
rosa_laevigata	RLG00000003428 RLG00000028697
rosa_multiflora	Rmu_sc0002180.1_g000016 Rmu_sc0002180.1_g000023 Rmu_ssc0000263.1_g000007
rosa_roxburghii	Rroxscaffold_3G00252730 Rroxscaffold_4G00307320
rosa_rugosa	Rorug01G0190700 Rorug01G0190800 Rorug07G0086000 Rorug07G0086000 Rorug07G0086100
rosa_samantha	Rh1AG209300 Rh1BG174300 Rh1CG193700 Rh1DG204100 Rh7AG216500 Rh7AG216700 Rh7BG213600 Rh7CG230000 Rh7DG224100 Rh7DG224300
rosa_wichuraiana	Rw1G017440 Rw7G018760 Rw7G018780

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	1049
AccII	CGCG	5 cut(s)	68, 471, 495, 538, 573
AclWI	GGATC	5 cut(s)	538, 551, 625, 940, 1127
AcoI	YGGCCR	3 cut(s)	250, 1051, 1057
AcsI	RAATTY	3 cut(s)	632, 675, 869
AcuI	CTGAAG	3 cut(s)	669, 771, 864
AcyI	GRCGYC	1 cut(s)	138
AfaI	GTAC	1 cut(s)	308
AfiI	CCNNNNNNNGG	5 cut(s)	1022, 1049, 1080, 1153, 1154
AflII	CTTAAG	1 cut(s)	836
AgsI	TTSAA	7 cut(s)	198, 788, 809, 875, 894, 1012, 1130
AjiI	CACGTC	1 cut(s)	236
AjnI	CCWGG	1 cut(s)	1073
AjuI	GAANNNNNNNTTGG	2 cut(s)	353, 385
AluBI	AGCT	6 cut(s)	85, 107, 209, 456, 749, 889
AluI	AGCT	6 cut(s)	85, 107, 209, 456, 749, 889
Alw26I	GTCTC	3 cut(s)	137, 725, 1020
AlwI	GGATC	5 cut(s)	538, 551, 625, 940, 1127
AlwNI	CAGNNNCTG	1 cut(s)	326
AoxI	GGCC	6 cut(s)	220, 250, 395, 822, 1051, 1057
ApeKI	GCWGC	4 cut(s)	58, 89, 713, 1089
ApoI	RAATTY	3 cut(s)	632, 675, 869
ArsI	GACNNNNNNTTYG	2 cut(s)	975, 1007
AspLEI	GCGC	1 cut(s)	534
AspS9I	GGNCC	3 cut(s)	49, 464, 823
AsuC2I	CCSGG	1 cut(s)	129
AsuHPI	GGTGA	3 cut(s)	65, 398, 533
AvaII	GGWCC	2 cut(s)	49, 464
AxyI	CCTNAGG	2 cut(s)	639, 765
BaeI	ACNNNNGTAYC	2 cut(s)	298, 331
BamHI	GGATCC	1 cut(s)	543
BauI	CACGAG	1 cut(s)	1047
BbsI	GAAGAC	1 cut(s)	657
BbvI	GCAGC	4 cut(s)	45, 76, 725, 1101
BccI	CCATC	5 cut(s)	377, 383, 406, 419, 1051
BceAI	ACGGC	5 cut(s)	207, 237, 456, 1038, 1044
BcgI	CGANNNNNNTGC	2 cut(s)	23, 57
BciT130I	CCWGG	1 cut(s)	1075
BcnI	CCSGG	1 cut(s)	129
BcoDI	GTCTC	3 cut(s)	137, 725, 1020
BfmI	CTRYAG	1 cut(s)	827
BfoI	RGCGCY	1 cut(s)	535
BfrI	CTTAAG	1 cut(s)	836
BglI	GCCNNNNNGGC	1 cut(s)	830
BisI	GCNGC	7 cut(s)	59, 69, 90, 93, 493, 714, 1090
BlpI	GCTNAGC	1 cut(s)	114
BlsI	GCNGC	7 cut(s)	60, 70, 91, 94, 494, 715, 1091
Bme1390I	CCNGG	2 cut(s)	129, 1075
Bme18I	GGWCC	2 cut(s)	49, 464
BmgBI	CACGTC	1 cut(s)	236
BmgT120I	GGNCC	3 cut(s)	49, 464, 823
BmiI	GGNNCC	4 cut(s)	51, 545, 762, 1072
BmrFI	CCNGG	2 cut(s)	129, 1075
BmrI	ACTGGG	1 cut(s)	622
BmsI	GCATC	4 cut(s)	31, 340, 700, 1005
BmuI	ACTGGG	1 cut(s)	622
BpiI	GAAGAC	1 cut(s)	657
Bpu10I	CCTNAGC	1 cut(s)	108
Bpu1102I	GCTNAGC	1 cut(s)	114
BpuEI	CTTGAG	1 cut(s)	569
BpuMI	CCSGG	1 cut(s)	129
BsaHI	GRCGYC	1 cut(s)	138
BsaI	GGTCTC	2 cut(s)	137, 725
Bsc4I	CCNNNNNNNGG	5 cut(s)	1022, 1049, 1080, 1153, 1154
Bse1I	ACTGG	2 cut(s)	571, 617
Bse21I	CCTNAGG	2 cut(s)	639, 765
BseBI	CCWGG	1 cut(s)	1075
BseGI	GGATG	1 cut(s)	355
BseLI	CCNNNNNNNGG	5 cut(s)	1022, 1049, 1080, 1153, 1154
BseMII	CTCAG	6 cut(s)	122, 128, 194, 630, 756, 954
BseNI	ACTGG	2 cut(s)	571, 617
BseRI	GAGGAG	2 cut(s)	542, 782
BseXI	GCAGC	4 cut(s)	45, 76, 725, 1101
Bsh1236I	CGCG	5 cut(s)	68, 471, 495, 538, 573
BshFI	GGCC	6 cut(s)	222, 252, 397, 824, 1053, 1059
BsiSI	CCGG	1 cut(s)	129
BslFI	GGGAC	2 cut(s)	577, 658
BslI	CCNNNNNNNGG	5 cut(s)	1022, 1049, 1080, 1153, 1154
BsmAI	GTCTC	3 cut(s)	137, 725, 1020
BsmFI	GGGAC	2 cut(s)	577, 658
BsnI	GGCC	6 cut(s)	222, 252, 397, 824, 1053, 1059
Bso31I	GGTCTC	2 cut(s)	137, 725
Bsp143I	GATC	4 cut(s)	543, 617, 932, 1132
Bsp1720I	GCTNAGC	1 cut(s)	114
Bsp19I	CCATGG	1 cut(s)	481
BspANI	GGCC	6 cut(s)	222, 252, 397, 824, 1053, 1059
BspCNI	CTCAG	6 cut(s)	121, 127, 193, 631, 757, 955
BspFNI	CGCG	5 cut(s)	68, 471, 495, 538, 573
BspLI	GGNNCC	4 cut(s)	51, 545, 762, 1072
BspMAI	CTGCAG	1 cut(s)	831
BspPI	GGATC	5 cut(s)	538, 551, 625, 940, 1127
BspTI	CTTAAG	1 cut(s)	836
BspTNI	GGTCTC	2 cut(s)	137, 725
BsrI	ACTGG	2 cut(s)	571, 617
BssMI	GATC	4 cut(s)	543, 617, 932, 1132
BssNI	GRCGYC	1 cut(s)	138
BssSI	CACGAG	1 cut(s)	1047
BssT1I	CCWWGG	2 cut(s)	481, 1152
Bst2BI	CACGAG	1 cut(s)	1047
Bst2UI	CCWGG	1 cut(s)	1075
Bst4CI	ACNGT	1 cut(s)	302
Bst6I	CTCTTC	2 cut(s)	783, 804
BstACI	GRCGYC	1 cut(s)	138
BstAFI	CTTAAG	1 cut(s)	836
BstC8I	GCNNGC	6 cut(s)	87, 147, 168, 536, 831, 1017
BstDEI	CTNAG	7 cut(s)	108, 114, 180, 639, 765, 864, 963
BstDSI	CCRYGG	7 cut(s)	223, 253, 481, 493, 536, 1054, 1060
BstF5I	GGATG	1 cut(s)	355
BstFNI	CGCG	5 cut(s)	68, 471, 495, 538, 573
BstH2I	RGCGCY	1 cut(s)	535
BstHHI	GCGC	1 cut(s)	534
BstKTI	GATC	4 cut(s)	546, 620, 935, 1135
BstMAI	GTCTC	3 cut(s)	137, 725, 1020
BstMBI	GATC	4 cut(s)	543, 617, 932, 1132
BstMWI	GCNNNNNNNGC	6 cut(s)	124, 146, 163, 264, 746, 830
BstNI	CCWGG	1 cut(s)	1075
BstSCI	CCNGG	2 cut(s)	127, 1073
BstSFI	CTRYAG	1 cut(s)	827
BstUI	CGCG	5 cut(s)	68, 471, 495, 538, 573
BstV1I	GCAGC	4 cut(s)	45, 76, 725, 1101
BstV2I	GAAGAC	1 cut(s)	657
BstX2I	RGATCY	3 cut(s)	543, 932, 1132
BstYI	RGATCY	3 cut(s)	543, 932, 1132
Bsu36I	CCTNAGG	2 cut(s)	639, 765
BsuRI	GGCC	6 cut(s)	222, 252, 397, 824, 1053, 1059
BtgI	CCRYGG	7 cut(s)	223, 253, 481, 493, 536, 1054, 1060
BtgZI	GCGATG	1 cut(s)	396
BtrI	CACGTC	1 cut(s)	236
BtsCI	GGATG	1 cut(s)	355
BtsI	GCAGTG	2 cut(s)	878, 1114
BtsIMutI	CAGTG	3 cut(s)	307, 878, 1114
Cac8I	GCNNGC	6 cut(s)	87, 147, 168, 536, 831, 1017
CaiI	CAGNNNCTG	1 cut(s)	326
CfoI	GCGC	1 cut(s)	534
Cfr13I	GGNCC	3 cut(s)	49, 464, 823
Cfr42I	CCGCGG	2 cut(s)	496, 539
CseI	GACGC	2 cut(s)	146, 579
Csp6I	GTAC	1 cut(s)	307
CviAII	CATG	3 cut(s)	10, 482, 548
CviQI	GTAC	1 cut(s)	307
DdeI	CTNAG	7 cut(s)	108, 114, 180, 639, 765, 864, 963
DpnI	GATC	4 cut(s)	545, 619, 934, 1134
DpnII	GATC	4 cut(s)	543, 617, 932, 1132
EaeI	YGGCCR	3 cut(s)	250, 1051, 1057
Eam1104I	CTCTTC	2 cut(s)	783, 804
EarI	CTCTTC	2 cut(s)	783, 804
Eco130I	CCWWGG	2 cut(s)	481, 1152
Eco31I	GGTCTC	2 cut(s)	137, 725
Eco32I	GATATC	1 cut(s)	916
Eco47I	GGWCC	2 cut(s)	49, 464
Eco57I	CTGAAG	3 cut(s)	669, 771, 864
Eco81I	CCTNAGG	2 cut(s)	639, 765
EcoO109I	RGGNCCY	2 cut(s)	49, 823
EcoRII	CCWGG	1 cut(s)	1073
EcoRV	GATATC	1 cut(s)	916
EcoT14I	CCWWGG	2 cut(s)	481, 1152
ErhI	CCWWGG	2 cut(s)	481, 1152
FaeI	CATG	3 cut(s)	13, 485, 551
FaiI	YATR	7 cut(s)	11, 243, 417, 459, 483, 549, 795
FaqI	GGGAC	2 cut(s)	577, 658
FatI	CATG	3 cut(s)	9, 481, 547
FauI	CCCGC	2 cut(s)	154, 543
Fnu4HI	GCNGC	7 cut(s)	59, 69, 90, 93, 493, 714, 1090
FokI	GGATG	1 cut(s)	362
Fsp4HI	GCNGC	7 cut(s)	59, 69, 90, 93, 493, 714, 1090
GlaI	GCGC	1 cut(s)	533
GluI	GCNGC	7 cut(s)	59, 69, 90, 93, 493, 714, 1090
HaeII	RGCGCY	1 cut(s)	535
HaeIII	GGCC	6 cut(s)	222, 252, 397, 824, 1053, 1059
HapII	CCGG	1 cut(s)	129
HgaI	GACGC	2 cut(s)	146, 579
HhaI	GCGC	1 cut(s)	534
Hin1I	GRCGYC	1 cut(s)	138
Hin1II	CATG	3 cut(s)	13, 485, 551
Hin6I	GCGC	1 cut(s)	532
HinP1I	GCGC	1 cut(s)	532
HinfI	GANTC	6 cut(s)	194, 278, 317, 657, 875, 956
HpaII	CCGG	1 cut(s)	129
HphI	GGTGA	3 cut(s)	65, 398, 533
Hpy166II	GTNNAC	2 cut(s)	233, 464
Hpy188I	TCNGA	2 cut(s)	403, 937
Hpy188III	TCNNGA	5 cut(s)	134, 275, 314, 638, 1009
Hpy8I	GTNNAC	2 cut(s)	233, 464
Hpy99I	CGWCG	3 cut(s)	38, 140, 558
HpyCH4III	ACNGT	1 cut(s)	302
HpyCH4IV	ACGT	2 cut(s)	235, 553
HpyCH4V	TGCA	5 cut(s)	353, 665, 713, 829, 883
HpyF10VI	GCNNNNNNNGC	6 cut(s)	124, 146, 163, 264, 746, 830
HpyF3I	CTNAG	7 cut(s)	108, 114, 180, 639, 765, 864, 963
HpySE526I	ACGT	2 cut(s)	235, 553
Hsp92I	GRCGYC	1 cut(s)	138
Hsp92II	CATG	3 cut(s)	13, 485, 551
HspAI	GCGC	1 cut(s)	532
KspI	CCGCGG	2 cut(s)	496, 539
Kzo9I	GATC	4 cut(s)	543, 617, 932, 1132
LmnI	GCTCC	1 cut(s)	529
Lsp1109I	GCAGC	4 cut(s)	45, 76, 725, 1101
LweI	GCATC	4 cut(s)	31, 340, 700, 1005
MaeII	ACGT	2 cut(s)	235, 553
MalI	GATC	4 cut(s)	545, 619, 934, 1134
MboI	GATC	4 cut(s)	543, 617, 932, 1132
MflI	RGATCY	3 cut(s)	543, 932, 1132
MluCI	AATT	5 cut(s)	632, 675, 869, 926, 1125
MlyI	GAGTC	2 cut(s)	666, 965
MseI	TTAA	2 cut(s)	837, 924
MspA1I	CMGCKG	2 cut(s)	495, 538
MspCI	CTTAAG	1 cut(s)	836
MspI	CCGG	1 cut(s)	129
MspR9I	CCNGG	2 cut(s)	129, 1075
MvaI	CCWGG	1 cut(s)	1075
MvnI	CGCG	5 cut(s)	68, 471, 495, 538, 573
MwoI	GCNNNNNNNGC	6 cut(s)	124, 146, 163, 264, 746, 830
NciI	CCSGG	1 cut(s)	129
NcoI	CCATGG	1 cut(s)	481
NdeII	GATC	4 cut(s)	543, 617, 932, 1132
NlaIII	CATG	3 cut(s)	13, 485, 551
NlaIV	GGNNCC	4 cut(s)	51, 545, 762, 1072
NmeAIII	GCCGAG	1 cut(s)	70
PcsI	WCGNNNNNNNCGW	2 cut(s)	42, 220
PfeI	GAWTC	4 cut(s)	194, 278, 317, 875
PflFI	GACNNNGTC	1 cut(s)	656
PflMI	CCANNNNNTGG	1 cut(s)	1049
PkrI	GCNGC	7 cut(s)	60, 70, 91, 94, 494, 715, 1091
PleI	GAGTC	2 cut(s)	665, 964
PpsI	GAGTC	2 cut(s)	665, 964
PpuMI	RGGWCCY	1 cut(s)	49
Psp5II	RGGWCCY	1 cut(s)	49
Psp6I	CCWGG	1 cut(s)	1073
PspGI	CCWGG	1 cut(s)	1073
PspN4I	GGNNCC	4 cut(s)	51, 545, 762, 1072
PspPI	GGNCC	3 cut(s)	49, 464, 823
PspPPI	RGGWCCY	1 cut(s)	49
PstI	CTGCAG	1 cut(s)	831
PstNI	CAGNNNCTG	1 cut(s)	326
PsuI	RGATCY	3 cut(s)	543, 932, 1132
PsyI	GACNNNGTC	1 cut(s)	656
RsaI	GTAC	1 cut(s)	308
RsaNI	GTAC	1 cut(s)	307
SacII	CCGCGG	2 cut(s)	496, 539
SaqAI	TTAA	2 cut(s)	837, 924
SatI	GCNGC	7 cut(s)	59, 69, 90, 93, 493, 714, 1090
Sau3AI	GATC	4 cut(s)	543, 617, 932, 1132
Sau96I	GGNCC	3 cut(s)	49, 464, 823
SbfI	CCTGCAGG	1 cut(s)	831
SchI	GAGTC	2 cut(s)	666, 965
ScrFI	CCNGG	2 cut(s)	129, 1075
SdaI	CCTGCAGG	1 cut(s)	831
SfaNI	GCATC	4 cut(s)	31, 340, 700, 1005
SfcI	CTRYAG	1 cut(s)	827
Sfr303I	CCGCGG	2 cut(s)	496, 539
SgrBI	CCGCGG	2 cut(s)	496, 539
SinI	GGWCC	2 cut(s)	49, 464
SmlI	CTYRAG	2 cut(s)	584, 836
SmoI	CTYRAG	2 cut(s)	584, 836
Sse8387I	CCTGCAGG	1 cut(s)	831
Sse9I	AATT	5 cut(s)	632, 675, 869, 926, 1125
StyD4I	CCNGG	2 cut(s)	127, 1073
StyI	CCWWGG	2 cut(s)	481, 1152
TaaI	ACNGT	1 cut(s)	302
TaiI	ACGT	2 cut(s)	238, 556
TaqI	TCGA	1 cut(s)	135
TasI	AATT	5 cut(s)	632, 675, 869, 926, 1125
TauI	GCSGC	3 cut(s)	71, 95, 495
TfiI	GAWTC	4 cut(s)	194, 278, 317, 875
Tru1I	TTAA	2 cut(s)	837, 924
Tru9I	TTAA	2 cut(s)	837, 924
TscAI	CASTG	3 cut(s)	307, 885, 1114
TseI	GCWGC	4 cut(s)	58, 89, 713, 1089
TspDTI	ATGAA	8 cut(s)	26, 219, 306, 564, 594, 645, 759, 910
TspGWI	ACGGA	1 cut(s)	669
TspRI	CASTG	3 cut(s)	307, 885, 1114
Tth111I	GACNNNGTC	1 cut(s)	656
Van91I	CCANNNNNTGG	1 cut(s)	1049
Vha464I	CTTAAG	1 cut(s)	836
VpaK11BI	GGWCC	2 cut(s)	49, 464
XapI	RAATTY	3 cut(s)	632, 675, 869

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