Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5A

Orthogroup ID

OG0017770

Physical Location & Seq

Genomic Coordinates Forward (+)

85141907 .. 85143651

Gene Structure 1745 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5AG503400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 573 bp

ATGGCAGAGGATGGAAGCGATGAGGAGGTAGCTGAAAAATTAACGATTATGAATGAAGAATGTTTAGATGAAGAATATACCAATGAGTATGATGAAGAAGAAGAGGAAAACCACTATGCTTCTCGTGCCATATCCAAGATGCAACCCAGGTCTAGTGTATCCAAGGCTTACTGGGATGATGAGATGGGCATGGCTGTCGTATTTCCAAAGGGTAGAATTTGGAGGACCACGGGAATCTCTCGTAATGGCAAGCTCTATATCTCCATTGAGGAAGTTTTGTATTTGGTTGAAATAGGGGCTTTGCTTCTCTTGGATGGTAGTGATACTAGTATTTCCTTGGAAGATATATATACAAAGGTTTCAGATGGAAAGAATAAGTTCTTGTTGGAGGAATTTAGAGCTTATAGGCAACTCAGATACCTTGGGTACATTGTTGCGAGACATGGTATTCCCTGGTCTAGCAAGGGTGTCAAGACTAACTATGAATCTGTTTCTTCTCAAGTTTGTCCTGAAGCTAAAGAGATTAGGTCTGTCAATGGATTGTTCAATGGGATACAGATTAATGCTACTTGA

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

190

Amino Acids

21.62

Weight (kDa)

4.67

Isoelectric Point (pI)

47.2

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
tRNA_int_end_N2	PF12928	46 - 103	7.2e-14	tRNA-splicing endonuclease subunit sen54 N-term

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)

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Publication-ready

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Orthologous Genes (Group: OG0017770)

Species	Orthologous Gene IDs
rosa_chinensis	RchiOBHm_Chr1g0361791
rosa_multiflora	Rmu_sc0000206.1_g000034 Rmu_sc0001861.1_g000057 Rmu_sc0002063.1_g000008
rosa_rugosa	Rorug03G0189800 Rorug04G0209300
rosa_samantha	Rh4BG023500 Rh5AG503400 Rh5BG538100 Rh5CG562000
rosa_wichuraiana	Rw1G021270 Rw6G018810

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AcsI	RAATTY	2 cut(s)	216, 392
AcuI	CTGAAG	1 cut(s)	531
AfaI	GTAC	1 cut(s)	428
AgsI	TTSAA	2 cut(s)	290, 547
AhlI	ACTAGT	1 cut(s)	326
AjnI	CCWGG	2 cut(s)	146, 452
AluBI	AGCT	4 cut(s)	32, 253, 401, 515
AluI	AGCT	4 cut(s)	32, 253, 401, 515
Alw26I	GTCTC	1 cut(s)	433
ApoI	RAATTY	2 cut(s)	216, 392
AseI	ATTAAT	1 cut(s)	561
Asp700I	GAANNNNTTC	1 cut(s)	377
AspS9I	GGNCC	1 cut(s)	225
AvaII	GGWCC	1 cut(s)	225
BauI	CACGAG	1 cut(s)	123
BccI	CCATC	4 cut(s)	5, 178, 308, 359
BcgI	CGANNNNNNTGC	2 cut(s)	178, 212
BciT130I	CCWGG	2 cut(s)	148, 454
BciVI	GTATCC	2 cut(s)	169, 546
BcoDI	GTCTC	1 cut(s)	433
BcuI	ACTAGT	1 cut(s)	326
BfaI	CTAG	3 cut(s)	153, 327, 459
BfuI	GTATCC	2 cut(s)	169, 546
Bme1390I	CCNGG	2 cut(s)	148, 454
Bme18I	GGWCC	1 cut(s)	225
BmgT120I	GGNCC	1 cut(s)	225
BmrFI	CCNGG	2 cut(s)	148, 454
BmrI	ACTGGG	1 cut(s)	181
BmsI	GCATC	1 cut(s)	129
BmuI	ACTGGG	1 cut(s)	181
BpuEI	CTTGAG	1 cut(s)	483
BsaJI	CCNNGG	6 cut(s)	146, 162, 228, 336, 421, 452
Bse1I	ACTGG	1 cut(s)	176
BseBI	CCWGG	2 cut(s)	148, 454
BseDI	CCNNGG	6 cut(s)	146, 162, 228, 336, 421, 452
BseGI	GGATG	3 cut(s)	16, 181, 319
BseMII	CTCAG	1 cut(s)	427
BseNI	ACTGG	1 cut(s)	176
BseRI	GAGGAG	1 cut(s)	38
BsmAI	GTCTC	1 cut(s)	433
BspCNI	CTCAG	1 cut(s)	426
BsrI	ACTGG	1 cut(s)	176
BssECI	CCNNGG	6 cut(s)	146, 162, 228, 336, 421, 452
BssSI	CACGAG	1 cut(s)	123
BssT1I	CCWWGG	3 cut(s)	162, 336, 421
Bst2BI	CACGAG	1 cut(s)	123
Bst2UI	CCWGG	2 cut(s)	148, 454
Bst6I	CTCTTC	1 cut(s)	96
BstC8I	GCNNGC	1 cut(s)	251
BstDEI	CTNAG	1 cut(s)	413
BstDSI	CCRYGG	1 cut(s)	228
BstF5I	GGATG	3 cut(s)	16, 181, 319
BstMAI	GTCTC	1 cut(s)	433
BstMWI	GCNNNNNNNGC	1 cut(s)	125
BstNI	CCWGG	2 cut(s)	148, 454
BstSCI	CCNGG	2 cut(s)	146, 452
BsuI	GTATCC	2 cut(s)	169, 546
BtgI	CCRYGG	1 cut(s)	228
BtgZI	GCGATG	1 cut(s)	33
BtsCI	GGATG	3 cut(s)	16, 181, 319
Cac8I	GCNNGC	1 cut(s)	251
Cfr13I	GGNCC	1 cut(s)	225
Csp6I	GTAC	1 cut(s)	427
CviAII	CATG	2 cut(s)	190, 443
CviJI	RGCY	7 cut(s)	32, 167, 194, 253, 299, 401, 515
CviKI_1	RGCY	7 cut(s)	32, 167, 194, 253, 299, 401, 515
CviQI	GTAC	1 cut(s)	427
DdeI	CTNAG	1 cut(s)	413
Eam1104I	CTCTTC	1 cut(s)	96
EarI	CTCTTC	1 cut(s)	96
Eco130I	CCWWGG	3 cut(s)	162, 336, 421
Eco47I	GGWCC	1 cut(s)	225
Eco57I	CTGAAG	1 cut(s)	531
EcoRII	CCWGG	2 cut(s)	146, 452
EcoT14I	CCWWGG	3 cut(s)	162, 336, 421
ErhI	CCWWGG	3 cut(s)	162, 336, 421
FaeI	CATG	2 cut(s)	193, 446
FatI	CATG	2 cut(s)	189, 442
FokI	GGATG	3 cut(s)	23, 188, 326
FspBI	CTAG	3 cut(s)	153, 327, 459
Hin1II	CATG	2 cut(s)	193, 446
HinfI	GANTC	2 cut(s)	234, 485
Hpy188I	TCNGA	2 cut(s)	364, 416
Hpy188III	TCNNGA	2 cut(s)	472, 509
HpyCH4V	TGCA	1 cut(s)	142
HpyF10VI	GCNNNNNNNGC	1 cut(s)	125
HpyF3I	CTNAG	1 cut(s)	413
Hsp92II	CATG	2 cut(s)	193, 446
LpnPI	CCDG	6 cut(s)	133, 157, 160, 439, 466, 522
LweI	GCATC	1 cut(s)	129
MaeI	CTAG	3 cut(s)	153, 327, 459
MboII	GAAGA	7 cut(s)	68, 83, 107, 110, 113, 353, 486
MluCI	AATT	3 cut(s)	38, 216, 392
MmeI	TCCRAC	1 cut(s)	366
MnlI	CCTC	6 cut(s)	16, 19, 97, 216, 262, 382
MroXI	GAANNNNTTC	1 cut(s)	377
MseI	TTAA	2 cut(s)	41, 561
MspR9I	CCNGG	2 cut(s)	148, 454
MvaI	CCWGG	2 cut(s)	148, 454
MwoI	GCNNNNNNNGC	1 cut(s)	125
NlaIII	CATG	2 cut(s)	193, 446
PdmI	GAANNNNTTC	1 cut(s)	377
PfeI	GAWTC	2 cut(s)	234, 485
PshBI	ATTAAT	1 cut(s)	561
Psp6I	CCWGG	2 cut(s)	146, 452
PspGI	CCWGG	2 cut(s)	146, 452
PspPI	GGNCC	1 cut(s)	225
RsaI	GTAC	1 cut(s)	428
RsaNI	GTAC	1 cut(s)	427
SaqAI	TTAA	2 cut(s)	41, 561
Sau96I	GGNCC	1 cut(s)	225
ScrFI	CCNGG	2 cut(s)	148, 454
SetI	ASST	9 cut(s)	30, 34, 152, 255, 360, 403, 423, 517, 530
SfaNI	GCATC	1 cut(s)	129
SinI	GGWCC	1 cut(s)	225
SmlI	CTYRAG	1 cut(s)	498
SmoI	CTYRAG	1 cut(s)	498
SpeI	ACTAGT	1 cut(s)	326
Sse9I	AATT	3 cut(s)	38, 216, 392
SspMI	CTAG	3 cut(s)	153, 327, 459
StyD4I	CCNGG	2 cut(s)	146, 452
StyI	CCWWGG	3 cut(s)	162, 336, 421
TasI	AATT	3 cut(s)	38, 216, 392
TfiI	GAWTC	2 cut(s)	234, 485
Tru1I	TTAA	2 cut(s)	41, 561
Tru9I	TTAA	2 cut(s)	41, 561
TspDTI	ATGAA	5 cut(s)	65, 69, 84, 108, 498
VpaK11BI	GGWCC	1 cut(s)	225
VspI	ATTAAT	1 cut(s)	561
XapI	RAATTY	2 cut(s)	216, 392
XmnI	GAANNNNTTC	1 cut(s)	377
XspI	CTAG	3 cut(s)	153, 327, 459

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