Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr7A

Orthogroup ID

OG0001333

Physical Location & Seq

Genomic Coordinates Forward (+)

11283709 .. 11284257

Gene Structure 549 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh7AG139900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 549 bp

ATGCATAAGATGCCGCGGATTTGGATTATGTATTCACAGAGCCTGACGGAGCAGAGATTGGTCACGAGGACTCGCCGGAGTTTCGATCGGGCGCTGTGTGCTCTGCCGGTGCAGCAGCACGACCGGATTTGGGAGCTGTATTTGGTGTTCGTGAGCCAGAAGGGGATCCCTATCCAGACCTCGCTTCGGGTCTACCGGAGGTACTTGCTTTATGACCCGACTTATGTTGAGGACTATATTGCGTTTTTGATAGAGTCTGAGCTGCGGCAAGATGCGGCGAAACTGCTGGCCTCAGTGCTTAATGATGATCAGTTTAGGTCAATTAAGGGAAAGACTAAGCATAGGTTGTGGTTGGAGTTGTGTGATTTGCTTACTAAGAATGCCACGGCGGTTTCGGGGTTGAATGTGGATGCTATCATTAGAGGTGGGATTAAGAAGTTTACGGATGAGGTGGGAAGGCTGTGGACGTCGTTGCCGGATTATTATATTAAGAGGGGTTTGTTTGAGAAGGCTAGGGATGTGTTTGAGGAGGGATGCAGACTGTGGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000349 GO:0000375 GO:0000377 GO:0000393 GO:0000398 GO:0000974 GO:0001701 GO:0001824 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005681 GO:0005684 GO:0006139 GO:0006259 GO:0006281 GO:0006283 GO:0006289 GO:0006351 GO:0006396 GO:0006397 GO:0006725 GO:0006807 GO:0006950 GO:0006974 GO:0007275 GO:0008150 GO:0008152 GO:0008380 GO:0009058 GO:0009059 GO:0009790 GO:0009792 GO:0009987 GO:0010467 GO:0016043 GO:0016070 GO:0016071 GO:0018130 GO:0019438 GO:0022607 GO:0022613 GO:0022618 GO:0032501 GO:0032502 GO:0032774 GO:0032991 GO:0033554 GO:0034622 GO:0034641 GO:0034645 GO:0034654 GO:0043009 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043933 GO:0044085 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0046483 GO:0048856 GO:0050896 GO:0051716 GO:0065003 GO:0071007 GO:0071010 GO:0071012 GO:0071013 GO:0071014 GO:0071704 GO:0071826 GO:0071840 GO:0090304 GO:0097659 GO:1901360 GO:1901362 GO:1901576 GO:1902494 GO:1990904

KEGG Pathways

Metabolic & Signaling

ko03040 map03040

Pfam Domains

Protein Families

Suf

Protein Analysis

182

Amino Acids

21.52

Weight (kDa)

9.38

Isoelectric Point (pI)

52.58

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
HAT_Syf1_CNRKL1_N	PF23233	1 - 73	5.4e-27	Pre-mRNA-splicing factor Syf1/CNRKL1 N-terminal HAT repeat
HAT_Syf1_M	PF23220	76 - 179	1.4e-38	Pre-mRNA-splicing factor SYF1 middle HAT repeat

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0001333)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G28740
fragaria_vesca	FvH4_3g03910 FvH4_3g04150 FvH4_3g04150 FvH4_3g04150 FvH4_3g04150
malus_domestica	MD05G1324400.v1.1 MD10G1302200.v1.1
prunus_persica	Prupe.5G013200_v2.0.a1
pyrus_communis	pycom05g29860 pycom10g25470
rosa_chinensis	RchiOBHm_Chr5g0006181 RchiOBHm_Chr5g0006191 RchiOBHm_Chr5g0006201 RchiOBHm_Chr5g0006601 RchiOBHm_Chr7g0193971
rosa_laevigata	RLG00000004227 RLG00000031375 RLG00000031376 RLG00000031403
rosa_multiflora	Rmu_co7988368.1_g000001 Rmu_co8257165.1_g000001 Rmu_co8304153.1_g000001 Rmu_co8327759.1_g000001 Rmu_sc0001972.1_g000002 Rmu_sc0002389.1_g000006 Rmu_sc0004331.1_g000002 Rmu_sc0005583.1_g000001 Rmu_sc0009371.1_g000007 Rmu_sc0011154.1_g000005 Rmu_sc0024345.1_g000002 Rmu_sc0032392.1_g000001 Rmu_sc0032393.1_g000001
rosa_roxburghii	Rroxscaffold_1G00069420 Rroxscaffold_1G00069440 Rroxscaffold_1G00069800 Rroxscaffold_2G00122720 Rroxscaffold_3G00261670
rosa_rugosa	Rorug04G0422900
rosa_samantha	Rh5AG050200 Rh5BG046700 Rh5BG046800 Rh5BG049400 Rh5CG055400 Rh5CG055600 Rh5CG057800 Rh5DG046500 Rh5DG048800 Rh7AG139900 Rh7AG140000 Rh7DG141300
rosa_wichuraiana	Rw5G004790 Rw5G005020 Rw7G011940

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AatII	GACGTC	1 cut(s)	470
AccI	GTMKAC	1 cut(s)	192
AccII	CGCG	1 cut(s)	16
AciI	CCGC	5 cut(s)	14, 16, 265, 275, 389
AclWI	GGATC	2 cut(s)	160, 173
AcyI	GRCGYC	1 cut(s)	467
AfaI	GTAC	1 cut(s)	203
AfiI	CCNNNNNNNGG	2 cut(s)	130, 186
AgsI	TTSAA	1 cut(s)	403
AluBI	AGCT	2 cut(s)	136, 262
AluI	AGCT	2 cut(s)	136, 262
Alw21I	GWGCWC	1 cut(s)	103
AlwI	GGATC	2 cut(s)	160, 173
AlwNI	CAGNNNCTG	1 cut(s)	43
AoxI	GGCC	1 cut(s)	288
ApeKI	GCWGC	3 cut(s)	112, 115, 262
AspLEI	GCGC	1 cut(s)	94
BamHI	GGATCC	1 cut(s)	165
BauI	CACGAG	1 cut(s)	64
Bbv12I	GWGCWC	1 cut(s)	103
BbvI	GCAGC	3 cut(s)	124, 127, 249
BceAI	ACGGC	1 cut(s)	402
BclI	TGATCA	1 cut(s)	307
BfaI	CTAG	1 cut(s)	513
BfoI	RGCGCY	1 cut(s)	95
BisI	GCNGC	6 cut(s)	14, 113, 116, 263, 266, 276
BlsI	GCNGC	6 cut(s)	15, 114, 117, 264, 267, 277
BmiI	GGNNCC	1 cut(s)	167
BmsI	GCATC	3 cut(s)	262, 400, 524
BsaBI	GATNNNNATC	1 cut(s)	170
BsaHI	GRCGYC	1 cut(s)	467
BsaJI	CCNNGG	2 cut(s)	14, 384
BsaWI	WCCGGW	2 cut(s)	123, 195
Bsc4I	CCNNNNNNNGG	2 cut(s)	130, 186
Bse118I	RCCGGY	1 cut(s)	106
Bse8I	GATNNNNATC	1 cut(s)	170
BseDI	CCNNGG	2 cut(s)	14, 384
BseGI	GGATG	4 cut(s)	415, 451, 523, 539
BseJI	GATNNNNATC	1 cut(s)	170
BseLI	CCNNNNNNNGG	2 cut(s)	130, 186
BseMII	CTCAG	2 cut(s)	249, 306
BseRI	GAGGAG	1 cut(s)	542
BseXI	GCAGC	3 cut(s)	124, 127, 249
BsgI	GTGCAG	1 cut(s)	131
Bsh1236I	CGCG	1 cut(s)	16
Bsh1285I	CGRYCG	2 cut(s)	88, 124
BshFI	GGCC	1 cut(s)	290
BsiEI	CGRYCG	2 cut(s)	88, 124
BsiHKAI	GWGCWC	1 cut(s)	103
BsiSI	CCGG	5 cut(s)	76, 107, 124, 196, 476
BslI	CCNNNNNNNGG	2 cut(s)	130, 186
BsmI	GAATGC	1 cut(s)	385
BsnI	GGCC	1 cut(s)	290
Bsp1286I	GDGCHC	1 cut(s)	103
Bsp143I	GATC	3 cut(s)	85, 165, 307
BspACI	CCGC	5 cut(s)	14, 16, 265, 275, 389
BspANI	GGCC	1 cut(s)	290
BspCNI	CTCAG	2 cut(s)	250, 305
BspFNI	CGCG	1 cut(s)	16
BspLI	GGNNCC	1 cut(s)	167
BspPI	GGATC	2 cut(s)	160, 173
BsrFI	RCCGGY	1 cut(s)	106
BssAI	RCCGGY	1 cut(s)	106
BssECI	CCNNGG	2 cut(s)	14, 384
BssMI	GATC	3 cut(s)	85, 165, 307
BssNI	GRCGYC	1 cut(s)	467
BssSI	CACGAG	1 cut(s)	64
Bst2BI	CACGAG	1 cut(s)	64
Bst4CI	ACNGT	1 cut(s)	543
BstACI	GRCGYC	1 cut(s)	467
BstAPI	GCANNNNNTGC	1 cut(s)	10
BstC8I	GCNNGC	1 cut(s)	288
BstDEI	CTNAG	4 cut(s)	258, 292, 336, 375
BstDSI	CCRYGG	2 cut(s)	14, 384
BstF5I	GGATG	4 cut(s)	415, 451, 523, 539
BstFNI	CGCG	1 cut(s)	16
BstH2I	RGCGCY	1 cut(s)	95
BstHHI	GCGC	1 cut(s)	94
BstKTI	GATC	3 cut(s)	88, 168, 310
BstMBI	GATC	3 cut(s)	85, 165, 307
BstMCI	CGRYCG	2 cut(s)	88, 124
BstMWI	GCNNNNNNNGC	3 cut(s)	10, 98, 112
BstUI	CGCG	1 cut(s)	16
BstV1I	GCAGC	3 cut(s)	124, 127, 249
BstX2I	RGATCY	1 cut(s)	165
BstYI	RGATCY	1 cut(s)	165
BsuRI	GGCC	1 cut(s)	290
BtgI	CCRYGG	2 cut(s)	14, 384
BtsCI	GGATG	4 cut(s)	415, 451, 523, 539
BtsIMutI	CAGTG	1 cut(s)	300
Cac8I	GCNNGC	1 cut(s)	288
CaiI	CAGNNNCTG	1 cut(s)	43
CfoI	GCGC	1 cut(s)	94
Cfr10I	RCCGGY	1 cut(s)	106
Cfr42I	CCGCGG	1 cut(s)	17
Csp6I	GTAC	1 cut(s)	202
CviJI	RGCY	7 cut(s)	42, 136, 156, 262, 290, 460, 512
CviKI_1	RGCY	7 cut(s)	42, 136, 156, 262, 290, 460, 512
CviQI	GTAC	1 cut(s)	202
DdeI	CTNAG	4 cut(s)	258, 292, 336, 375
DpnI	GATC	3 cut(s)	87, 167, 309
DpnII	GATC	3 cut(s)	85, 165, 307
EcoT22I	ATGCAT	1 cut(s)	6
FaiI	YATR	7 cut(s)	6, 29, 213, 225, 237, 342, 486
FbaI	TGATCA	1 cut(s)	307
FblI	GTMKAC	1 cut(s)	192
Fnu4HI	GCNGC	6 cut(s)	14, 113, 116, 263, 266, 276
FokI	GGATG	3 cut(s)	422, 458, 530
Fsp4HI	GCNGC	6 cut(s)	14, 113, 116, 263, 266, 276
FspBI	CTAG	1 cut(s)	513
GlaI	GCGC	1 cut(s)	93
GluI	GCNGC	6 cut(s)	14, 113, 116, 263, 266, 276
HaeII	RGCGCY	1 cut(s)	95
HaeIII	GGCC	1 cut(s)	290
HapII	CCGG	5 cut(s)	76, 107, 124, 196, 476
HhaI	GCGC	1 cut(s)	94
Hin1I	GRCGYC	1 cut(s)	467
Hin6I	GCGC	1 cut(s)	92
HinP1I	GCGC	1 cut(s)	92
HinfI	GANTC	2 cut(s)	70, 254
HpaII	CCGG	5 cut(s)	76, 107, 124, 196, 476
Hpy166II	GTNNAC	3 cut(s)	193, 441, 465
Hpy188I	TCNGA	1 cut(s)	259
Hpy188III	TCNNGA	3 cut(s)	64, 151, 175
Hpy8I	GTNNAC	3 cut(s)	193, 441, 465
Hpy99I	CGWCG	1 cut(s)	472
HpyAV	CCTTC	3 cut(s)	154, 450, 502
HpyCH4III	ACNGT	1 cut(s)	543
HpyCH4IV	ACGT	1 cut(s)	467
HpyCH4V	TGCA	3 cut(s)	4, 112, 537
HpyF10VI	GCNNNNNNNGC	3 cut(s)	10, 98, 112
HpyF3I	CTNAG	4 cut(s)	258, 292, 336, 375
HpySE526I	ACGT	1 cut(s)	467
Hsp92I	GRCGYC	1 cut(s)	467
HspAI	GCGC	1 cut(s)	92
Ksp22I	TGATCA	1 cut(s)	307
KspI	CCGCGG	1 cut(s)	17
Kzo9I	GATC	3 cut(s)	85, 165, 307
LmnI	GCTCC	2 cut(s)	49, 133
LpnPI	CCDG	9 cut(s)	56, 89, 120, 137, 170, 188, 209, 272, 489
Lsp1109I	GCAGC	3 cut(s)	124, 127, 249
LweI	GCATC	3 cut(s)	262, 400, 524
MaeI	CTAG	1 cut(s)	513
MaeII	ACGT	1 cut(s)	467
MaeIII	GTNAC	1 cut(s)	61
MalI	GATC	3 cut(s)	87, 167, 309
MboI	GATC	3 cut(s)	85, 165, 307
MflI	RGATCY	1 cut(s)	165
MhlI	GDGCHC	1 cut(s)	103
MluCI	AATT	1 cut(s)	321
MlyI	GAGTC	2 cut(s)	64, 263
MmeI	TCCRAC	1 cut(s)	333
Mph1103I	ATGCAT	1 cut(s)	6
MseI	TTAA	4 cut(s)	300, 324, 432, 489
MspA1I	CMGCKG	1 cut(s)	16
MspI	CCGG	5 cut(s)	76, 107, 124, 196, 476
Mva1269I	GAATGC	1 cut(s)	385
MvnI	CGCG	1 cut(s)	16
MwoI	GCNNNNNNNGC	3 cut(s)	10, 98, 112
NdeII	GATC	3 cut(s)	85, 165, 307
NlaIV	GGNNCC	1 cut(s)	167
NmuCI	GTSAC	1 cut(s)	61
NsiI	ATGCAT	1 cut(s)	6
PctI	GAATGC	1 cut(s)	385
PkrI	GCNGC	6 cut(s)	15, 114, 117, 264, 267, 277
Ple19I	CGATCG	1 cut(s)	88
PleI	GAGTC	2 cut(s)	64, 262
PpsI	GAGTC	2 cut(s)	64, 262
PspN4I	GGNNCC	1 cut(s)	167
PsrI	GAACNNNNNNTAC	2 cut(s)	131, 163
PstNI	CAGNNNCTG	1 cut(s)	43
PsuI	RGATCY	1 cut(s)	165
PvuI	CGATCG	1 cut(s)	88
RsaI	GTAC	1 cut(s)	203
RsaNI	GTAC	1 cut(s)	202
SacII	CCGCGG	1 cut(s)	17
SaqAI	TTAA	4 cut(s)	300, 324, 432, 489
SatI	GCNGC	6 cut(s)	14, 113, 116, 263, 266, 276
Sau3AI	GATC	3 cut(s)	85, 165, 307
SchI	GAGTC	2 cut(s)	64, 263
SduI	GDGCHC	1 cut(s)	103
SetI	ASST	9 cut(s)	138, 182, 203, 264, 320, 347, 427, 453, 470
SfaNI	GCATC	3 cut(s)	262, 400, 524
Sfr303I	CCGCGG	1 cut(s)	17
SgrBI	CCGCGG	1 cut(s)	17
Sse9I	AATT	1 cut(s)	321
SsiI	CCGC	5 cut(s)	14, 16, 265, 275, 389
SspMI	CTAG	1 cut(s)	513
TaaI	ACNGT	1 cut(s)	543
TaiI	ACGT	1 cut(s)	470
TaqI	TCGA	1 cut(s)	84
TasI	AATT	1 cut(s)	321
TauI	GCSGC	3 cut(s)	16, 268, 278
Tru1I	TTAA	4 cut(s)	300, 324, 432, 489
Tru9I	TTAA	4 cut(s)	300, 324, 432, 489
TscAI	CASTG	1 cut(s)	300
TseFI	GTSAC	1 cut(s)	61
TseI	GCWGC	3 cut(s)	112, 115, 262
Tsp45I	GTSAC	1 cut(s)	61
TspGWI	ACGGA	2 cut(s)	62, 458
TspRI	CASTG	1 cut(s)	300
XmiI	GTMKAC	1 cut(s)	192
XspI	CTAG	1 cut(s)	513
ZraI	GACGTC	1 cut(s)	468
Zsp2I	ATGCAT	1 cut(s)	6

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