Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1A

Orthogroup ID

OG0004276

Physical Location & Seq

Genomic Coordinates Reverse (-)

64514675 .. 64515199

Gene Structure 525 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1AG412000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 525 bp

ATGGGGTCTAGATGGAAAGCAAAGGGCTTCAAAGCTAAAGCTCTTGCAGACCCCATGTCCAAGATAGTACTGCAGCTTCAGTCTTCTCTAAATCAATCAAATTGTGAAGGATTGGTATGTGGGTGTAGTGTGCTTCTCTCAGTGGAAGCAGAACAAGCTGATCTCCTTAGCCGTTCGTACTTTGGTGAAGCCATGGTTACTGCTGAGAAGGATAAGCAATGGTTTGAGTTGAGTTTGGAGGAGGGCTTTTATCTGAGCTATGCTCTAAAATGCCTCAGGATAGTTGAAGATAAATGTCTGAAGAGTGATGAGCAGCTATGGCAGTGCATGAAGTCTAGAAGCGCATTGTTTCCGTATTTTTATAAGGCTTATTGTCATCTTAGAATGAAGAATTGGGTTGTTATGTCGGGGTTTACATATGGTGCGAACTTGTTGCTTACCGTCATCATCCAGAGTTGGTACATTCTGAATATGCTGTGGTTGTGTCCTTGGAGGAGGAGGAGGGTGGTGCAAATAATCGATTGA

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

174

Amino Acids

20.21

Weight (kDa)

8.89

Isoelectric Point (pI)

65.19

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
tRNA_int_endo_N	PF02778	37 - 107	4e-12	tRNA intron endonuclease, N-terminal domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready

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

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)
AanI	TTATAA	1 cut(s)	363
AcuI	CTGAAG	2 cut(s)	62, 320
AfaI	GTAC	3 cut(s)	69, 179, 461
AgsI	TTSAA	2 cut(s)	31, 287
AhdI	GACNNNNNGTC	1 cut(s)	55
AjuI	GAANNNNNNNTTGG	2 cut(s)	376, 408
AluBI	AGCT	6 cut(s)	35, 41, 76, 158, 258, 316
AluI	AGCT	6 cut(s)	35, 41, 76, 158, 258, 316
ApeKI	GCWGC	2 cut(s)	73, 313
AspLEI	GCGC	1 cut(s)	344
AsuHPI	GGTGA	1 cut(s)	197
AxyI	CCTNAGG	1 cut(s)	275
BarI	GAAGNNNNNNTAC	2 cut(s)	60, 92
BbsI	GAAGAC	1 cut(s)	75
BbvI	GCAGC	2 cut(s)	85, 325
BccI	CCATC	1 cut(s)	6
BceAI	ACGGC	1 cut(s)	156
BcgI	CGANNNNNNTGC	2 cut(s)	415, 449
BfaI	CTAG	2 cut(s)	9, 336
BfmI	CTRYAG	1 cut(s)	71
BisI	GCNGC	2 cut(s)	74, 314
BlsI	GCNGC	2 cut(s)	75, 315
BmcAI	AGTACT	1 cut(s)	69
BmeRI	GACNNNNNGTC	1 cut(s)	55
BpiI	GAAGAC	1 cut(s)	75
BplI	GAGNNNNNCTC	2 cut(s)	247, 279
Bpu10I	CCTNAGC	1 cut(s)	167
Bsa29I	ATCGAT	1 cut(s)	519
BsaJI	CCNNGG	2 cut(s)	192, 488
Bse21I	CCTNAGG	1 cut(s)	275
Bse3DI	GCAATG	1 cut(s)	224
BseCI	ATCGAT	1 cut(s)	519
BseDI	CCNNGG	2 cut(s)	192, 488
BseGI	GGATG	1 cut(s)	447
BseMI	GCAATG	1 cut(s)	224
BseMII	CTCAG	4 cut(s)	153, 195, 245, 289
BseRI	GAGGAG	4 cut(s)	254, 508, 511, 514
BseXI	GCAGC	2 cut(s)	85, 325
BshVI	ATCGAT	1 cut(s)	519
Bsp143I	GATC	1 cut(s)	160
Bsp19I	CCATGG	1 cut(s)	192
BspCNI	CTCAG	4 cut(s)	152, 196, 246, 288
BspDI	ATCGAT	1 cut(s)	519
BspMAI	CTGCAG	1 cut(s)	75
BsrDI	GCAATG	1 cut(s)	224
BssECI	CCNNGG	2 cut(s)	192, 488
BssMI	GATC	1 cut(s)	160
BssT1I	CCWWGG	2 cut(s)	192, 488
Bst4CI	ACNGT	1 cut(s)	442
Bst6I	CTCTTC	1 cut(s)	296
BstDEI	CTNAG	6 cut(s)	139, 167, 204, 254, 275, 380
BstDSI	CCRYGG	1 cut(s)	192
BstF5I	GGATG	1 cut(s)	447
BstHHI	GCGC	1 cut(s)	344
BstKTI	GATC	1 cut(s)	163
BstMBI	GATC	1 cut(s)	160
BstMWI	GCNNNNNNNGC	2 cut(s)	155, 319
BstSFI	CTRYAG	1 cut(s)	71
BstV1I	GCAGC	2 cut(s)	85, 325
BstV2I	GAAGAC	1 cut(s)	75
Bsu15I	ATCGAT	1 cut(s)	519
Bsu36I	CCTNAGG	1 cut(s)	275
BsuTUI	ATCGAT	1 cut(s)	519
BtgI	CCRYGG	1 cut(s)	192
BtsCI	GGATG	1 cut(s)	447
BtsI	GCAGTG	1 cut(s)	329
BtsIMutI	CAGTG	2 cut(s)	147, 329
CfoI	GCGC	1 cut(s)	344
ClaI	ATCGAT	1 cut(s)	519
Csp6I	GTAC	3 cut(s)	68, 178, 460
CviAII	CATG	3 cut(s)	55, 193, 328
CviQI	GTAC	3 cut(s)	68, 178, 460
DdeI	CTNAG	6 cut(s)	139, 167, 204, 254, 275, 380
DpnI	GATC	1 cut(s)	162
DpnII	GATC	1 cut(s)	160
DriI	GACNNNNNGTC	1 cut(s)	55
Eam1104I	CTCTTC	1 cut(s)	296
Eam1105I	GACNNNNNGTC	1 cut(s)	55
EarI	CTCTTC	1 cut(s)	296
Eco130I	CCWWGG	2 cut(s)	192, 488
Eco57I	CTGAAG	2 cut(s)	62, 320
Eco81I	CCTNAGG	1 cut(s)	275
EcoT14I	CCWWGG	2 cut(s)	192, 488
ErhI	CCWWGG	2 cut(s)	192, 488
FaeI	CATG	3 cut(s)	58, 196, 331
FatI	CATG	3 cut(s)	54, 192, 327
FauNDI	CATATG	1 cut(s)	418
Fnu4HI	GCNGC	2 cut(s)	74, 314
FokI	GGATG	1 cut(s)	434
Fsp4HI	GCNGC	2 cut(s)	74, 314
FspBI	CTAG	2 cut(s)	9, 336
GlaI	GCGC	1 cut(s)	343
GluI	GCNGC	2 cut(s)	74, 314
HhaI	GCGC	1 cut(s)	344
Hin1II	CATG	3 cut(s)	58, 196, 331
Hin6I	GCGC	1 cut(s)	342
HinP1I	GCGC	1 cut(s)	342
HphI	GGTGA	1 cut(s)	197
Hpy166II	GTNNAC	1 cut(s)	414
Hpy188I	TCNGA	3 cut(s)	255, 300, 468
Hpy188III	TCNNGA	4 cut(s)	9, 277, 336, 451
Hpy8I	GTNNAC	1 cut(s)	414
HpyAV	CCTTC	2 cut(s)	101, 202
HpyCH4III	ACNGT	1 cut(s)	442
HpyCH4V	TGCA	4 cut(s)	47, 73, 327, 511
HpyF10VI	GCNNNNNNNGC	2 cut(s)	155, 319
HpyF3I	CTNAG	6 cut(s)	139, 167, 204, 254, 275, 380
Hsp92II	CATG	3 cut(s)	58, 196, 331
HspAI	GCGC	1 cut(s)	342
Kzo9I	GATC	1 cut(s)	160
LpnPI	CCDG	2 cut(s)	262, 464
Lsp1109I	GCAGC	2 cut(s)	85, 325
MaeI	CTAG	2 cut(s)	9, 336
MaeIII	GTNAC	1 cut(s)	196
MalI	GATC	1 cut(s)	162
MboI	GATC	1 cut(s)	160
MboII	GAAGA	4 cut(s)	75, 299, 313, 400
MluCI	AATT	2 cut(s)	100, 391
MnlI	CCTC	7 cut(s)	232, 235, 284, 486, 489, 492, 495
MwoI	GCNNNNNNNGC	2 cut(s)	155, 319
NcoI	CCATGG	1 cut(s)	192
NdeI	CATATG	1 cut(s)	418
NdeII	GATC	1 cut(s)	160
NlaIII	CATG	3 cut(s)	58, 196, 331
PkrI	GCNGC	2 cut(s)	75, 315
PsiI	TTATAA	1 cut(s)	363
PstI	CTGCAG	1 cut(s)	75
RsaI	GTAC	3 cut(s)	69, 179, 461
RsaNI	GTAC	3 cut(s)	68, 178, 460
SatI	GCNGC	2 cut(s)	74, 314
Sau3AI	GATC	1 cut(s)	160
ScaI	AGTACT	1 cut(s)	69
SetI	ASST	6 cut(s)	37, 43, 78, 160, 260, 318
SfcI	CTRYAG	1 cut(s)	71
Sse9I	AATT	2 cut(s)	100, 391
SspMI	CTAG	2 cut(s)	9, 336
StyI	CCWWGG	2 cut(s)	192, 488
TaaI	ACNGT	1 cut(s)	442
TaqI	TCGA	1 cut(s)	519
TasI	AATT	2 cut(s)	100, 391
TatI	WGTACW	1 cut(s)	67
TscAI	CASTG	2 cut(s)	147, 329
TseI	GCWGC	2 cut(s)	73, 313
TspDTI	ATGAA	2 cut(s)	344, 401
TspGWI	ACGGA	1 cut(s)	342
TspRI	CASTG	2 cut(s)	147, 329
XbaI	TCTAGA	2 cut(s)	8, 335
XspI	CTAG	2 cut(s)	9, 336
ZrmI	AGTACT	1 cut(s)	69

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