Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000001

Orthogroup ID

OG0004276

Physical Location & Seq

Genomic Coordinates Reverse (-)

23969976 .. 23970890

Gene Structure 915 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_1G00019610.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 915 bp

ATGGGACCTAGATGGAAAGGAAAGGATGCAAAAGCTAAAGCTCTTGCAGATCCCATGTCAAGTATAGTATTGCAGCTTCAGTCTTCTCTAGTGCAATCAGATGCCCAAGGATTCTTGTGTGGGTGCAATGTACTTCTTGAAGCAGGACCAAAGCAAACGGATCTCCTTCTTCGTGCCTGCTTTGGCGAACCCATAAAAAACTTGTCTGGTGAACCCATTATCAACAAAAACAATAAGCATTGGTTTTACTTTGGCATGGAAGAGGCATTCTTCCTATGCAATTCTCTAAAATGCCTCAAGATACTTGATGGTTTAGATAACTGCCCGAAGAATGATCAAGAACTTTTCCAGTACATGAAATCTAAGAAAACAACATTCCCCGATTCTTACAAGGCCTATTCTCATCTTCGGCTGAAAAATTGCGTTGTGATGTACGATTCCAATTACTGTGCAGACTTTGTTGCCTACCGCCACCATCCCTCTCTGGTCCATTCTGAATTTGTTGTGATTCTGTTATCAGAAGGAGATAGCGAGGCAAATGATCGATTGAGGGTGTGGTCTGATGTCCGTGGCACCAAAAGGCTGGGTAAAGTTATTAAGAAGGCATTGCTAGTTCTTTGCGTTGATAAAAATGGTCATGATGCTACCTCTCCATCATGTTTGGAAGGATACACAGTTACAGAGCACACAATTTCGAGATGGAGTCCGGAACAATGCCATGAGGATCACCCGAAAGATGATTGGGAACCAAGTAGTTGTTCTGTGCCATTAATGCCTAGCGGAACCACATTAAGGTCTAAAGTGGCTTTAGCCCCACGGCAAGTTTCTCACGATCAAATATTCAAGGCTTTGGTTATTTTCTTTTGGACAATCGTAGTCTTCGGTTTTGGATTTGCTATAGGAAAATTGCTTTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0000213 GO:0000214 GO:0000278 GO:0000281 GO:0000379 GO:0000394 GO:0000910 GO:0003006 GO:0003674 GO:0003824 GO:0004518 GO:0004519 GO:0004521 GO:0004540 GO:0004549 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006139 GO:0006388 GO:0006396 GO:0006399 GO:0006725 GO:0006807 GO:0007049 GO:0007275 GO:0008033 GO:0008150 GO:0008152 GO:0008356 GO:0008380 GO:0009790 GO:0009791 GO:0009793 GO:0009987 GO:0010069 GO:0010070 GO:0010154 GO:0010467 GO:0016070 GO:0016787 GO:0016788 GO:0016892 GO:0016894 GO:0022402 GO:0022414 GO:0032501 GO:0032502 GO:0032991 GO:0034470 GO:0034641 GO:0034660 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0046483 GO:0048316 GO:0048608 GO:0048731 GO:0048856 GO:0051301 GO:0061458 GO:0061640 GO:0071704 GO:0090304 GO:0090305 GO:0090501 GO:0090502 GO:0140098 GO:0140101 GO:1901360 GO:1902494 GO:1902555 GO:1903047 GO:1905348

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

tRNA_int_endo tRNA_int_endo_N

Protein Analysis

304

Amino Acids

34.19

Weight (kDa)

8.19

Isoelectric Point (pI)

48.94

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
tRNA_int_endo	PF01974	126 - 212	1.2e-11	tRNA intron endonuclease, catalytic C-terminal domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0004276)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G38890
fragaria_vesca	FvH4_6g01503 FvH4_6g01503 FvH4_6g01503 FvH4_6g01503 FvH4_6g01510
malus_domestica	MD11G1123700.v1.1 MD11G1124300.v1.1 MD12G1250600.v1.1
prunus_persica	Prupe.6G093000_v2.0.a1 Prupe.6G093000_v2.0.a1 Prupe.6G352700_v2.0.a1 Prupe.6G352700_v2.0.a1
pyrus_communis	pycom11g10450 pycom12g23060
rosa_chinensis	RchiOBHm_Chr3g0449171 RchiOBHm_Chr3g0449181 RchiOBHm_Chr5g0061031
rosa_laevigata	RLG00000035421
rosa_multiflora	Rmu_co8387241.1_g000001 Rmu_sc0000640.1_g000004 Rmu_sc0004874.1_g000009 Rmu_sc0006661.1_g000007
rosa_roxburghii	Rroxscaffold_1G00019610 Rroxscaffold_6G00427230
rosa_rugosa	Rorug02G0618600 Rorug05G0336200
rosa_samantha	Rh1AG412000 Rh3AG016900
rosa_wichuraiana	Rw3G001270 Rw3G001280 Rw5G037580

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	572
AccIII	TCCGGA	1 cut(s)	706
AciI	CCGC	2 cut(s)	469, 780
AclWI	GGATC	3 cut(s)	44, 168, 732
AcsI	RAATTY	1 cut(s)	497
AcuI	CTGAAG	1 cut(s)	62
AfaI	GTAC	3 cut(s)	132, 353, 434
AfiI	CCNNNNNNNGG	1 cut(s)	792
AgsI	TTSAA	2 cut(s)	140, 844
AjuI	GAANNNNNNNTTGG	2 cut(s)	742, 774
AluBI	AGCT	3 cut(s)	35, 41, 76
AluI	AGCT	3 cut(s)	35, 41, 76
Alw21I	GWGCWC	1 cut(s)	687
AlwI	GGATC	3 cut(s)	44, 168, 732
Aor13HI	TCCGGA	1 cut(s)	706
AoxI	GGCC	1 cut(s)	393
ApeKI	GCWGC	1 cut(s)	73
ApoI	RAATTY	1 cut(s)	497
AseI	ATTAAT	1 cut(s)	770
AspS9I	GGNCC	3 cut(s)	5, 146, 487
AsuHPI	GGTGA	2 cut(s)	221, 719
AvaII	GGWCC	3 cut(s)	5, 146, 487
BanI	GGYRCC	1 cut(s)	572
BarI	GAAGNNNNNNTAC	2 cut(s)	60, 92
BbsI	GAAGAC	2 cut(s)	75, 871
Bbv12I	GWGCWC	1 cut(s)	687
BbvI	GCAGC	1 cut(s)	85
BccI	CCATC	5 cut(s)	6, 302, 483, 661, 693
BceAI	ACGGC	1 cut(s)	833
BciVI	GTATCC	1 cut(s)	662
BclI	TGATCA	1 cut(s)	334
BfaI	CTAG	4 cut(s)	9, 89, 611, 777
BfmI	CTRYAG	1 cut(s)	897
BfuI	GTATCC	1 cut(s)	662
BisI	GCNGC	1 cut(s)	74
BlsI	GCNGC	1 cut(s)	75
Bme18I	GGWCC	3 cut(s)	5, 146, 487
BmgT120I	GGNCC	3 cut(s)	5, 146, 487
BmiI	GGNNCC	4 cut(s)	6, 574, 747, 784
BmsI	GCATC	3 cut(s)	16, 91, 631
BpiI	GAAGAC	2 cut(s)	75, 871
BpuEI	CTTGAG	1 cut(s)	281
Bsa29I	ATCGAT	1 cut(s)	544
BsaJI	CCNNGG	3 cut(s)	106, 568, 815
BsaWI	WCCGGW	1 cut(s)	706
Bsc4I	CCNNNNNNNGG	1 cut(s)	792
Bse1I	ACTGG	1 cut(s)	349
Bse3DI	GCAATG	2 cut(s)	133, 605
BseAI	TCCGGA	1 cut(s)	706
BseCI	ATCGAT	1 cut(s)	544
BseDI	CCNNGG	3 cut(s)	106, 568, 815
BseGI	GGATG	2 cut(s)	31, 475
BseLI	CCNNNNNNNGG	1 cut(s)	792
BseMI	GCAATG	2 cut(s)	133, 605
BseNI	ACTGG	1 cut(s)	349
BseXI	GCAGC	1 cut(s)	85
BseYI	CCCAGC	1 cut(s)	583
BsgI	GTGCAG	1 cut(s)	471
BshFI	GGCC	1 cut(s)	395
BshNI	GGYRCC	1 cut(s)	572
BshVI	ATCGAT	1 cut(s)	544
BsiHKAI	GWGCWC	1 cut(s)	687
BsiSI	CCGG	1 cut(s)	707
BslFI	GGGAC	1 cut(s)	18
BslI	CCNNNNNNNGG	1 cut(s)	792
BsmFI	GGGAC	1 cut(s)	18
BsmI	GAATGC	1 cut(s)	266
BsnI	GGCC	1 cut(s)	395
Bsp1286I	GDGCHC	1 cut(s)	687
Bsp13I	TCCGGA	1 cut(s)	706
Bsp143I	GATC	6 cut(s)	49, 160, 334, 541, 724, 832
BspACI	CCGC	2 cut(s)	469, 780
BspANI	GGCC	1 cut(s)	395
BspDI	ATCGAT	1 cut(s)	544
BspEI	TCCGGA	1 cut(s)	706
BspHI	TCATGA	1 cut(s)	637
BspLI	GGNNCC	4 cut(s)	6, 574, 747, 784
BspPI	GGATC	3 cut(s)	44, 168, 732
BspT107I	GGYRCC	1 cut(s)	572
BsrDI	GCAATG	2 cut(s)	133, 605
BsrI	ACTGG	1 cut(s)	349
BssECI	CCNNGG	3 cut(s)	106, 568, 815
BssMI	GATC	6 cut(s)	49, 160, 334, 541, 724, 832
BssT1I	CCWWGG	1 cut(s)	106
Bst4CI	ACNGT	2 cut(s)	449, 676
Bst6I	CTCTTC	1 cut(s)	255
BstC8I	GCNNGC	1 cut(s)	178
BstDEI	CTNAG	1 cut(s)	363
BstDSI	CCRYGG	2 cut(s)	568, 815
BstF5I	GGATG	2 cut(s)	31, 475
BstKTI	GATC	6 cut(s)	52, 163, 337, 544, 727, 835
BstMBI	GATC	6 cut(s)	49, 160, 334, 541, 724, 832
BstMWI	GCNNNNNNNGC	1 cut(s)	772
BstSFI	CTRYAG	1 cut(s)	897
BstV1I	GCAGC	1 cut(s)	85
BstV2I	GAAGAC	2 cut(s)	75, 871
BstX2I	RGATCY	2 cut(s)	49, 160
BstXI	CCANNNNNNTGG	1 cut(s)	583
BstYI	RGATCY	2 cut(s)	49, 160
Bsu15I	ATCGAT	1 cut(s)	544
BsuI	GTATCC	1 cut(s)	662
BsuRI	GGCC	1 cut(s)	395
BsuTUI	ATCGAT	1 cut(s)	544
BtgI	CCRYGG	2 cut(s)	568, 815
BtsCI	GGATG	2 cut(s)	31, 475
Cac8I	GCNNGC	1 cut(s)	178
CciI	TCATGA	1 cut(s)	637
Cfr13I	GGNCC	3 cut(s)	5, 146, 487
ClaI	ATCGAT	1 cut(s)	544
Csp6I	GTAC	3 cut(s)	131, 352, 433
CviAII	CATG	6 cut(s)	55, 256, 355, 638, 657, 719
CviJI	RGCY	9 cut(s)	35, 41, 76, 395, 412, 583, 806, 812, 848
CviKI_1	RGCY	9 cut(s)	35, 41, 76, 395, 412, 583, 806, 812, 848
CviQI	GTAC	3 cut(s)	131, 352, 433
DdeI	CTNAG	1 cut(s)	363
DpnI	GATC	6 cut(s)	51, 162, 336, 543, 726, 834
DpnII	GATC	6 cut(s)	49, 160, 334, 541, 724, 832
Eam1104I	CTCTTC	1 cut(s)	255
EarI	CTCTTC	1 cut(s)	255
Eco130I	CCWWGG	1 cut(s)	106
Eco147I	AGGCCT	1 cut(s)	395
Eco47I	GGWCC	3 cut(s)	5, 146, 487
Eco57I	CTGAAG	1 cut(s)	62
EcoO109I	RGGNCCY	1 cut(s)	5
EcoT14I	CCWWGG	1 cut(s)	106
ErhI	CCWWGG	1 cut(s)	106
FaeI	CATG	6 cut(s)	58, 259, 358, 641, 660, 722
FaqI	GGGAC	1 cut(s)	18
FatI	CATG	6 cut(s)	54, 255, 354, 637, 656, 718
FbaI	TGATCA	1 cut(s)	334
Fnu4HI	GCNGC	1 cut(s)	74
FokI	GGATG	2 cut(s)	38, 462
Fsp4HI	GCNGC	1 cut(s)	74
FspBI	CTAG	4 cut(s)	9, 89, 611, 777
GluI	GCNGC	1 cut(s)	74
GsaI	CCCAGC	1 cut(s)	587
HaeIII	GGCC	1 cut(s)	395
HapII	CCGG	1 cut(s)	707
Hin1II	CATG	6 cut(s)	58, 259, 358, 641, 660, 722
HinfI	GANTC	5 cut(s)	111, 383, 437, 508, 703
HpaII	CCGG	1 cut(s)	707
HphI	GGTGA	2 cut(s)	221, 719
Hpy166II	GTNNAC	1 cut(s)	212
Hpy188I	TCNGA	4 cut(s)	100, 496, 520, 562
Hpy188III	TCNNGA	7 cut(s)	137, 298, 338, 638, 696, 707, 830
Hpy8I	GTNNAC	1 cut(s)	212
HpyAV	CCTTC	4 cut(s)	176, 515, 595, 659
HpyCH4III	ACNGT	2 cut(s)	449, 676
HpyCH4V	TGCA	7 cut(s)	29, 47, 73, 94, 126, 279, 452
HpyF10VI	GCNNNNNNNGC	1 cut(s)	772
HpyF3I	CTNAG	1 cut(s)	363
Hsp92II	CATG	6 cut(s)	58, 259, 358, 641, 660, 722
Kpn2I	TCCGGA	1 cut(s)	706
Ksp22I	TGATCA	1 cut(s)	334
Kzo9I	GATC	6 cut(s)	49, 160, 334, 541, 724, 832
LpnPI	CCDG	7 cut(s)	129, 190, 192, 362, 470, 569, 720
Lsp1109I	GCAGC	1 cut(s)	85
LweI	GCATC	3 cut(s)	16, 91, 631
MaeI	CTAG	4 cut(s)	9, 89, 611, 777
MaeIII	GTNAC	1 cut(s)	676
MalI	GATC	6 cut(s)	51, 162, 336, 543, 726, 834
MboI	GATC	6 cut(s)	49, 160, 334, 541, 724, 832
MboII	GAAGA	7 cut(s)	75, 161, 262, 272, 340, 398, 871
MflI	RGATCY	2 cut(s)	49, 160
MhlI	GDGCHC	1 cut(s)	687
MluCI	AATT	6 cut(s)	280, 418, 442, 497, 690, 905
MlyI	GAGTC	1 cut(s)	712
MnlI	CCTC	7 cut(s)	256, 305, 490, 526, 543, 658, 715
MroI	TCCGGA	1 cut(s)	706
MseI	TTAA	3 cut(s)	597, 770, 791
MspI	CCGG	1 cut(s)	707
Mva1269I	GAATGC	1 cut(s)	266
MwoI	GCNNNNNNNGC	1 cut(s)	772
NdeII	GATC	6 cut(s)	49, 160, 334, 541, 724, 832
NlaIII	CATG	6 cut(s)	58, 259, 358, 641, 660, 722
NlaIV	GGNNCC	4 cut(s)	6, 574, 747, 784
PagI	TCATGA	1 cut(s)	637
PceI	AGGCCT	1 cut(s)	395
PctI	GAATGC	1 cut(s)	266
PfeI	GAWTC	4 cut(s)	111, 383, 437, 508
PkrI	GCNGC	1 cut(s)	75
PleI	GAGTC	1 cut(s)	711
PpsI	GAGTC	1 cut(s)	711
PpuMI	RGGWCCY	1 cut(s)	5
PshBI	ATTAAT	1 cut(s)	770
Psp5II	RGGWCCY	1 cut(s)	5
PspFI	CCCAGC	1 cut(s)	583
PspN4I	GGNNCC	4 cut(s)	6, 574, 747, 784
PspPI	GGNCC	3 cut(s)	5, 146, 487
PspPPI	RGGWCCY	1 cut(s)	5
PsuI	RGATCY	2 cut(s)	49, 160
RsaI	GTAC	3 cut(s)	132, 353, 434
RsaNI	GTAC	3 cut(s)	131, 352, 433
SaqAI	TTAA	3 cut(s)	597, 770, 791
SatI	GCNGC	1 cut(s)	74
Sau3AI	GATC	6 cut(s)	49, 160, 334, 541, 724, 832
Sau96I	GGNCC	3 cut(s)	5, 146, 487
SchI	GAGTC	1 cut(s)	712
SduI	GDGCHC	1 cut(s)	687
SetI	ASST	6 cut(s)	10, 37, 43, 78, 650, 797
SfaNI	GCATC	3 cut(s)	16, 91, 631
SfcI	CTRYAG	1 cut(s)	897
SinI	GGWCC	3 cut(s)	5, 146, 487
SmlI	CTYRAG	1 cut(s)	296
SmoI	CTYRAG	1 cut(s)	296
Sse9I	AATT	6 cut(s)	280, 418, 442, 497, 690, 905
SseBI	AGGCCT	1 cut(s)	395
SsiI	CCGC	2 cut(s)	469, 780
SspI	AATATT	1 cut(s)	840
SspMI	CTAG	4 cut(s)	9, 89, 611, 777
StuI	AGGCCT	1 cut(s)	395
StyI	CCWWGG	1 cut(s)	106
TaaI	ACNGT	2 cut(s)	449, 676
TaqI	TCGA	2 cut(s)	544, 695
TasI	AATT	6 cut(s)	280, 418, 442, 497, 690, 905
TatI	WGTACW	2 cut(s)	130, 351
TfiI	GAWTC	4 cut(s)	111, 383, 437, 508
Tru1I	TTAA	3 cut(s)	597, 770, 791
Tru9I	TTAA	3 cut(s)	597, 770, 791
TseI	GCWGC	1 cut(s)	73
TspDTI	ATGAA	1 cut(s)	371
TspGWI	ACGGA	2 cut(s)	173, 557
VpaK11BI	GGWCC	3 cut(s)	5, 146, 487
VspI	ATTAAT	1 cut(s)	770
XapI	RAATTY	1 cut(s)	497
XspI	CTAG	4 cut(s)	9, 89, 611, 777

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