Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Chr5

Orthogroup ID

OG0004276

Physical Location & Seq

Genomic Coordinates Forward (+)

66196119 .. 66197021

Gene Structure 903 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw5G037580.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 903 bp

ATGGAAGGAAAGGATGCAAAAGCTAAAGCTCTTGCAGATCCCATGTCAAGTATAGTATTGCAGCTTCAGTCTTCTCTAGTCCAATCAGATGCCCAAGGATTCTTGTGTGGGTGCAATGTACTTCTTGAAGCAGGACCAATGCAAACTGATCTCCTTCTTCGTGCCTGCTTTGGCGAACCCATAAAAAACTTGTCTGGTGAACCCATTATCAACAAAAACAATAAGCATTGGTTTTACTTTGGCATGGAGGAGGCATTCTTCCTATGCAATTCTCTAAAATGCCTCAAGATACTTGATGGTTTAGATAACTGCCCAAAGAATGATCAAGAACTTTTCCAGTACATGAAATCTAAGAAAACAACATTCCCCGATTCTTACAAGGCTTATTCTCATCTTCGGCTGAAAAATTGGGTTGTGATGTACGATTCCAATTACTGTGCAGACTTTGTTGCCTACCGCCACCATCCCTCTCTGGTCCATTCTGAATTTGTTGTGATTCTGTTATCAGAAGGAGATAGCGAGGCAAATGATCGATTGATGGTGTGGTTTGATGTCCGTGGCCCCAAAAGGCTGTGTAAAGTTATTAAGAAGGCATTGCTAGTTCTAAGCGTTGATAAAAATGGTCATGATGCTACCTCTCCATCATGTTTGGAAGGATACACAGTTACAGAGCACACAATTTCGAGATGGAGTCCGGAACAATGCCATGAGGATCACCCGAAAGATGATTGGGAACCATGTAGCAGTTCTGTGCCATTAATGCCTAGCGGAACCACATTAAGGTCTAAAGTGGCTTTAGCCCCATGGCAAGTTTCTCTCGATCAAATATTCAAGGCTTTGGTTATTTTCTTTTGGACAATCTTAGTCTTCGGTTTTGGATTTGCTTTAGGAAAATTGCTTTAG

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

300

Amino Acids

33.86

Weight (kDa)

6.31

Isoelectric Point (pI)

46.2

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
tRNA_int_endo	PF01974	122 - 208	4.6e-12	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

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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)
AccIII	TCCGGA	1 cut(s)	694
AciI	CCGC	2 cut(s)	457, 768
AclWI	GGATC	2 cut(s)	32, 720
AcsI	RAATTY	1 cut(s)	485
AcuI	CTGAAG	1 cut(s)	50
AfaI	GTAC	3 cut(s)	120, 341, 422
AfiI	CCNNNNNNNGG	1 cut(s)	780
AgsI	TTSAA	2 cut(s)	128, 832
AluBI	AGCT	3 cut(s)	23, 29, 64
AluI	AGCT	3 cut(s)	23, 29, 64
Alw21I	GWGCWC	1 cut(s)	675
AlwI	GGATC	2 cut(s)	32, 720
Aor13HI	TCCGGA	1 cut(s)	694
AoxI	GGCC	1 cut(s)	559
ApeKI	GCWGC	1 cut(s)	61
ApoI	RAATTY	1 cut(s)	485
AseI	ATTAAT	1 cut(s)	758
AspS9I	GGNCC	3 cut(s)	134, 475, 560
AsuHPI	GGTGA	2 cut(s)	209, 707
AvaII	GGWCC	2 cut(s)	134, 475
BarI	GAAGNNNNNNTAC	2 cut(s)	48, 80
BbsI	GAAGAC	2 cut(s)	63, 859
Bbv12I	GWGCWC	1 cut(s)	675
BbvI	GCAGC	1 cut(s)	73
BccI	CCATC	5 cut(s)	290, 471, 532, 649, 681
BciVI	GTATCC	1 cut(s)	650
BclI	TGATCA	1 cut(s)	322
BfaI	CTAG	3 cut(s)	77, 599, 765
BfuI	GTATCC	1 cut(s)	650
BisI	GCNGC	1 cut(s)	62
BlsI	GCNGC	1 cut(s)	63
Bme18I	GGWCC	2 cut(s)	134, 475
BmgT120I	GGNCC	3 cut(s)	134, 475, 560
BmiI	GGNNCC	3 cut(s)	562, 735, 772
BmsI	GCATC	3 cut(s)	4, 79, 619
BpiI	GAAGAC	2 cut(s)	63, 859
BpuEI	CTTGAG	1 cut(s)	269
Bsa29I	ATCGAT	1 cut(s)	532
BsaJI	CCNNGG	3 cut(s)	94, 556, 803
BsaWI	WCCGGW	1 cut(s)	694
Bsc4I	CCNNNNNNNGG	1 cut(s)	780
Bse1I	ACTGG	1 cut(s)	337
Bse3DI	GCAATG	2 cut(s)	121, 593
BseAI	TCCGGA	1 cut(s)	694
BseCI	ATCGAT	1 cut(s)	532
BseDI	CCNNGG	3 cut(s)	94, 556, 803
BseGI	GGATG	2 cut(s)	19, 463
BseLI	CCNNNNNNNGG	1 cut(s)	780
BseMI	GCAATG	2 cut(s)	121, 593
BseNI	ACTGG	1 cut(s)	337
BseRI	GAGGAG	1 cut(s)	263
BseXI	GCAGC	1 cut(s)	73
BsgI	GTGCAG	1 cut(s)	459
BshFI	GGCC	1 cut(s)	561
BshVI	ATCGAT	1 cut(s)	532
BsiHKAI	GWGCWC	1 cut(s)	675
BsiSI	CCGG	1 cut(s)	695
BslI	CCNNNNNNNGG	1 cut(s)	780
BsmI	GAATGC	1 cut(s)	254
BsnI	GGCC	1 cut(s)	561
Bsp1286I	GDGCHC	1 cut(s)	675
Bsp13I	TCCGGA	1 cut(s)	694
Bsp143I	GATC	6 cut(s)	37, 148, 322, 529, 712, 820
Bsp19I	CCATGG	1 cut(s)	803
BspACI	CCGC	2 cut(s)	457, 768
BspANI	GGCC	1 cut(s)	561
BspDI	ATCGAT	1 cut(s)	532
BspEI	TCCGGA	1 cut(s)	694
BspHI	TCATGA	1 cut(s)	625
BspLI	GGNNCC	3 cut(s)	562, 735, 772
BspPI	GGATC	2 cut(s)	32, 720
BsrDI	GCAATG	2 cut(s)	121, 593
BsrI	ACTGG	1 cut(s)	337
BssECI	CCNNGG	3 cut(s)	94, 556, 803
BssMI	GATC	6 cut(s)	37, 148, 322, 529, 712, 820
BssT1I	CCWWGG	2 cut(s)	94, 803
Bst4CI	ACNGT	2 cut(s)	437, 664
BstC8I	GCNNGC	1 cut(s)	166
BstDEI	CTNAG	3 cut(s)	351, 605, 862
BstDSI	CCRYGG	2 cut(s)	556, 803
BstF5I	GGATG	2 cut(s)	19, 463
BstKTI	GATC	6 cut(s)	40, 151, 325, 532, 715, 823
BstMBI	GATC	6 cut(s)	37, 148, 322, 529, 712, 820
BstMWI	GCNNNNNNNGC	1 cut(s)	760
BstV1I	GCAGC	1 cut(s)	73
BstV2I	GAAGAC	2 cut(s)	63, 859
BstX2I	RGATCY	1 cut(s)	37
BstYI	RGATCY	1 cut(s)	37
Bsu15I	ATCGAT	1 cut(s)	532
BsuI	GTATCC	1 cut(s)	650
BsuRI	GGCC	1 cut(s)	561
BsuTUI	ATCGAT	1 cut(s)	532
BtgI	CCRYGG	2 cut(s)	556, 803
BtsCI	GGATG	2 cut(s)	19, 463
Cac8I	GCNNGC	1 cut(s)	166
CciI	TCATGA	1 cut(s)	625
Cfr13I	GGNCC	3 cut(s)	134, 475, 560
ClaI	ATCGAT	1 cut(s)	532
Csp6I	GTAC	3 cut(s)	119, 340, 421
CviAII	CATG	8 cut(s)	43, 244, 343, 626, 645, 707, 738, 804
CviQI	GTAC	3 cut(s)	119, 340, 421
DdeI	CTNAG	3 cut(s)	351, 605, 862
DpnI	GATC	6 cut(s)	39, 150, 324, 531, 714, 822
DpnII	GATC	6 cut(s)	37, 148, 322, 529, 712, 820
Eco130I	CCWWGG	2 cut(s)	94, 803
Eco47I	GGWCC	2 cut(s)	134, 475
Eco57I	CTGAAG	1 cut(s)	50
EcoT14I	CCWWGG	2 cut(s)	94, 803
ErhI	CCWWGG	2 cut(s)	94, 803
FaeI	CATG	8 cut(s)	46, 247, 346, 629, 648, 710, 741, 807
FatI	CATG	8 cut(s)	42, 243, 342, 625, 644, 706, 737, 803
FbaI	TGATCA	1 cut(s)	322
Fnu4HI	GCNGC	1 cut(s)	62
FokI	GGATG	2 cut(s)	26, 450
Fsp4HI	GCNGC	1 cut(s)	62
FspBI	CTAG	3 cut(s)	77, 599, 765
GluI	GCNGC	1 cut(s)	62
HaeIII	GGCC	1 cut(s)	561
HapII	CCGG	1 cut(s)	695
Hin1II	CATG	8 cut(s)	46, 247, 346, 629, 648, 710, 741, 807
HinfI	GANTC	5 cut(s)	99, 371, 425, 496, 691
HpaII	CCGG	1 cut(s)	695
HphI	GGTGA	2 cut(s)	209, 707
Hpy166II	GTNNAC	1 cut(s)	200
Hpy188I	TCNGA	3 cut(s)	88, 484, 508
Hpy188III	TCNNGA	7 cut(s)	125, 286, 326, 626, 684, 695, 818
Hpy8I	GTNNAC	1 cut(s)	200
HpyAV	CCTTC	4 cut(s)	164, 503, 583, 647
HpyCH4III	ACNGT	2 cut(s)	437, 664
HpyCH4V	TGCA	7 cut(s)	17, 35, 61, 114, 142, 267, 440
HpyF10VI	GCNNNNNNNGC	1 cut(s)	760
HpyF3I	CTNAG	3 cut(s)	351, 605, 862
Hsp92II	CATG	8 cut(s)	46, 247, 346, 629, 648, 710, 741, 807
Kpn2I	TCCGGA	1 cut(s)	694
Ksp22I	TGATCA	1 cut(s)	322
Kzo9I	GATC	6 cut(s)	37, 148, 322, 529, 712, 820
LpnPI	CCDG	6 cut(s)	117, 178, 180, 350, 458, 708
Lsp1109I	GCAGC	1 cut(s)	73
LweI	GCATC	3 cut(s)	4, 79, 619
MaeI	CTAG	3 cut(s)	77, 599, 765
MaeIII	GTNAC	1 cut(s)	664
MalI	GATC	6 cut(s)	39, 150, 324, 531, 714, 822
MboI	GATC	6 cut(s)	37, 148, 322, 529, 712, 820
MboII	GAAGA	5 cut(s)	63, 149, 250, 386, 859
MflI	RGATCY	1 cut(s)	37
MhlI	GDGCHC	1 cut(s)	675
MluCI	AATT	6 cut(s)	268, 406, 430, 485, 678, 893
MlyI	GAGTC	1 cut(s)	700
MnlI	CCTC	7 cut(s)	241, 244, 293, 478, 514, 646, 703
MroI	TCCGGA	1 cut(s)	694
MseI	TTAA	3 cut(s)	585, 758, 779
MspI	CCGG	1 cut(s)	695
Mva1269I	GAATGC	1 cut(s)	254
MwoI	GCNNNNNNNGC	1 cut(s)	760
NcoI	CCATGG	1 cut(s)	803
NdeII	GATC	6 cut(s)	37, 148, 322, 529, 712, 820
NlaIII	CATG	8 cut(s)	46, 247, 346, 629, 648, 710, 741, 807
NlaIV	GGNNCC	3 cut(s)	562, 735, 772
PagI	TCATGA	1 cut(s)	625
PctI	GAATGC	1 cut(s)	254
PfeI	GAWTC	4 cut(s)	99, 371, 425, 496
PkrI	GCNGC	1 cut(s)	63
PleI	GAGTC	1 cut(s)	699
PpsI	GAGTC	1 cut(s)	699
PshBI	ATTAAT	1 cut(s)	758
PspN4I	GGNNCC	3 cut(s)	562, 735, 772
PspPI	GGNCC	3 cut(s)	134, 475, 560
PsuI	RGATCY	1 cut(s)	37
RsaI	GTAC	3 cut(s)	120, 341, 422
RsaNI	GTAC	3 cut(s)	119, 340, 421
SaqAI	TTAA	3 cut(s)	585, 758, 779
SatI	GCNGC	1 cut(s)	62
Sau3AI	GATC	6 cut(s)	37, 148, 322, 529, 712, 820
Sau96I	GGNCC	3 cut(s)	134, 475, 560
SchI	GAGTC	1 cut(s)	700
SduI	GDGCHC	1 cut(s)	675
SetI	ASST	5 cut(s)	25, 31, 66, 638, 785
SfaNI	GCATC	3 cut(s)	4, 79, 619
SinI	GGWCC	2 cut(s)	134, 475
SmlI	CTYRAG	1 cut(s)	284
SmoI	CTYRAG	1 cut(s)	284
Sse9I	AATT	6 cut(s)	268, 406, 430, 485, 678, 893
SsiI	CCGC	2 cut(s)	457, 768
SspI	AATATT	1 cut(s)	828
SspMI	CTAG	3 cut(s)	77, 599, 765
StyI	CCWWGG	2 cut(s)	94, 803
TaaI	ACNGT	2 cut(s)	437, 664
TaqI	TCGA	3 cut(s)	532, 683, 819
TasI	AATT	6 cut(s)	268, 406, 430, 485, 678, 893
TatI	WGTACW	2 cut(s)	118, 339
TfiI	GAWTC	4 cut(s)	99, 371, 425, 496
Tru1I	TTAA	3 cut(s)	585, 758, 779
Tru9I	TTAA	3 cut(s)	585, 758, 779
TseI	GCWGC	1 cut(s)	61
TspDTI	ATGAA	1 cut(s)	359
TspGWI	ACGGA	1 cut(s)	545
VpaK11BI	GGWCC	2 cut(s)	134, 475
VspI	ATTAAT	1 cut(s)	758
XapI	RAATTY	1 cut(s)	485
XspI	CTAG	3 cut(s)	77, 599, 765

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