Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2C

Orthogroup ID

OG0017996

Physical Location & Seq

Genomic Coordinates Reverse (-)

66662997 .. 66663876

Gene Structure 880 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2CG496200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 657 bp

ATGATGAGCATCATGCTCCGACGGACACCCTCGATGGCGCGCAACCTCGCCGCCATCGAAACCCTCCTCATAAACCGCCTCTCCTTCCCGCCAACGCCGTCATCCGGCCAAATGATTCCGGCCTCAGACGACGTCGTCGGCGAGGCCAAGACCTCCCACGGGTTTCAAGCTAGGAACTTTCAATCGAAATCGGTGCCGTTGAATTATCGCGCATCGCCGACTTTGTTGAGCGCCGCCCAGTTCGCAGTTGAGGACGGCCAATACGACGAGTCGTCTAAAAAGAGCGGCGATGATGACCTCGAGATTTCGAAGCTAGGGATTGATCACGAGATTGTATCTGCTTTGGCCAAGAAGGGGATCACTAAGCTTTTTCCCATTCAGAGAGCTGTGTTGGAACCAGCAATGCAAGGGCGTGATATGATTGGTCGTGCTAGAACTGGAACTGGGAAAACTCTTGCATTTGGGATTCCCATTTTGGATAAAATCATTCAATTCAACGCCAAACATGGCCGTGGGAGGAATCCTTTGGCTTTGGTGTTGGCTCCGACGAGAGAACTTGCGAAGCAAGTTGACAAGGAATTCTATGAGGCGGCACCGAGTCTGGATACGATTTGTGTGTGGTGCTACACCCATTGGAAGGCAGATGGGCCAGCTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000373 GO:0000375 GO:0000377 GO:0001101 GO:0003674 GO:0003676 GO:0003677 GO:0003723 GO:0003724 GO:0003824 GO:0004004 GO:0004386 GO:0005488 GO:0005575 GO:0005618 GO:0005622 GO:0005623 GO:0005634 GO:0005730 GO:0005737 GO:0005739 GO:0006139 GO:0006396 GO:0006725 GO:0006807 GO:0006950 GO:0006970 GO:0008026 GO:0008150 GO:0008152 GO:0008186 GO:0008380 GO:0009266 GO:0009409 GO:0009414 GO:0009415 GO:0009628 GO:0009651 GO:0009987 GO:0010035 GO:0010467 GO:0010501 GO:0016032 GO:0016070 GO:0016462 GO:0016787 GO:0016817 GO:0016818 GO:0016887 GO:0017111 GO:0018995 GO:0019034 GO:0019058 GO:0019079 GO:0030312 GO:0031974 GO:0031981 GO:0033643 GO:0033646 GO:0033647 GO:0033648 GO:0034641 GO:0039694 GO:0042025 GO:0042221 GO:0042623 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0043656 GO:0043657 GO:0044094 GO:0044215 GO:0044216 GO:0044217 GO:0044237 GO:0044238 GO:0044403 GO:0044419 GO:0044422 GO:0044424 GO:0044428 GO:0044444 GO:0044446 GO:0044464 GO:0046483 GO:0050896 GO:0051704 GO:0070013 GO:0070035 GO:0071704 GO:0071944 GO:0090304 GO:0097159 GO:0140098 GO:1901360 GO:1901363 GO:1901700

KEGG Pathways

Metabolic & Signaling

ko01110 map01110

Pfam Domains

Protein Families

DEAD Helicase_C

Protein Analysis

218

Amino Acids

23.81

Weight (kDa)

9.07

Isoelectric Point (pI)

30.89

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DEAD	PF00270	125 - 208	1.3e-18	DEAD/DEAH box helicase

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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Orthologous Genes (Group: OG0017996)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_2g38261
rosa_multiflora	Rmu_sc0002048.1_g000001 Rmu_sc0002048.1_g000003 Rmu_sc0004976.1_g000001 Rmu_sc0025549.1_g000001
rosa_roxburghii	Rroxscaffold_6G00421920
rosa_samantha	Rh2AG511100 Rh2BG521800 Rh2CG496200 Rh2DG531700
rosa_wichuraiana	Rw2G042010

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	134
AatII	GACGTC	1 cut(s)	135
AccB1I	GGYRCC	2 cut(s)	193, 592
AccBSI	CCGCTC	1 cut(s)	285
AccII	CGCG	2 cut(s)	40, 210
AciI	CCGC	6 cut(s)	51, 76, 89, 234, 285, 590
AclWI	GGATC	1 cut(s)	365
AcoI	YGGCCR	4 cut(s)	106, 256, 345, 508
AcsI	RAATTY	1 cut(s)	578
AcyI	GRCGYC	1 cut(s)	132
AfiI	CCNNNNNNNGG	4 cut(s)	104, 159, 354, 637
AgsI	TTSAA	5 cut(s)	167, 182, 202, 491, 496
AhdI	GACNNNNNGTC	1 cut(s)	271
AluBI	AGCT	5 cut(s)	170, 313, 367, 386, 653
AluI	AGCT	5 cut(s)	170, 313, 367, 386, 653
AlwI	GGATC	1 cut(s)	365
Ama87I	CYCGRG	1 cut(s)	299
AoxI	GGCC	7 cut(s)	106, 120, 144, 256, 345, 508, 647
ApoI	RAATTY	1 cut(s)	578
AspLEI	GCGC	4 cut(s)	40, 42, 212, 233
AspS9I	GGNCC	1 cut(s)	647
AsuII	TTCGAA	1 cut(s)	308
AvaI	CYCGRG	1 cut(s)	299
BalI	TGGCCA	1 cut(s)	347
BanI	GGYRCC	2 cut(s)	193, 592
BauI	CACGAG	1 cut(s)	326
BccI	CCATC	3 cut(s)	28, 62, 638
BceAI	ACGGC	4 cut(s)	82, 181, 271, 495
BcgI	CGANNNNNNTGC	2 cut(s)	175, 209
BciVI	GTATCC	1 cut(s)	598
BclI	TGATCA	1 cut(s)	322
BfaI	CTAG	3 cut(s)	171, 314, 432
BfoI	RGCGCY	1 cut(s)	234
BfuI	GTATCC	1 cut(s)	598
BisI	GCNGC	4 cut(s)	51, 234, 286, 591
BlsI	GCNGC	4 cut(s)	52, 235, 287, 592
BmeRI	GACNNNNNGTC	1 cut(s)	271
BmeT110I	CYCGRG	1 cut(s)	299
BmgT120I	GGNCC	1 cut(s)	647
BmiI	GGNNCC	4 cut(s)	195, 396, 543, 594
BmrI	ACTGGG	2 cut(s)	232, 453
BmsI	GCATC	2 cut(s)	18, 221
BmuI	ACTGGG	2 cut(s)	232, 453
Bpu14I	TTCGAA	1 cut(s)	308
BsaBI	GATNNNNATC	1 cut(s)	8
BsaHI	GRCGYC	1 cut(s)	132
BsaJI	CCNNGG	2 cut(s)	157, 511
BsaXI	ACNNNNNCTCC	2 cut(s)	65, 95
Bsc4I	CCNNNNNNNGG	4 cut(s)	104, 159, 354, 637
Bse1I	ACTGG	3 cut(s)	238, 442, 448
Bse3DI	GCAATG	1 cut(s)	408
Bse8I	GATNNNNATC	1 cut(s)	8
BseDI	CCNNGG	2 cut(s)	157, 511
BseGI	GGATG	1 cut(s)	101
BseJI	GATNNNNATC	1 cut(s)	8
BseLI	CCNNNNNNNGG	4 cut(s)	104, 159, 354, 637
BseMI	GCAATG	1 cut(s)	408
BseMII	CTCAG	1 cut(s)	138
BseNI	ACTGG	3 cut(s)	238, 442, 448
BsePI	GCGCGC	1 cut(s)	38
BseRI	GAGGAG	1 cut(s)	56
Bsh1236I	CGCG	2 cut(s)	40, 210
BshFI	GGCC	7 cut(s)	108, 122, 146, 258, 347, 510, 649
BshNI	GGYRCC	2 cut(s)	193, 592
BsiHKCI	CYCGRG	1 cut(s)	299
BsiSI	CCGG	2 cut(s)	105, 119
BslI	CCNNNNNNNGG	4 cut(s)	104, 159, 354, 637
BsnI	GGCC	7 cut(s)	108, 122, 146, 258, 347, 510, 649
BsoBI	CYCGRG	1 cut(s)	299
Bsp119I	TTCGAA	1 cut(s)	308
Bsp143I	GATC	2 cut(s)	322, 357
BspACI	CCGC	6 cut(s)	51, 76, 89, 234, 285, 590
BspANI	GGCC	7 cut(s)	108, 122, 146, 258, 347, 510, 649
BspCNI	CTCAG	1 cut(s)	137
BspFNI	CGCG	2 cut(s)	40, 210
BspLI	GGNNCC	4 cut(s)	195, 396, 543, 594
BspPI	GGATC	1 cut(s)	365
BspT104I	TTCGAA	1 cut(s)	308
BspT107I	GGYRCC	2 cut(s)	193, 592
BsrBI	CCGCTC	1 cut(s)	285
BsrDI	GCAATG	1 cut(s)	408
BsrI	ACTGG	3 cut(s)	238, 442, 448
BssECI	CCNNGG	2 cut(s)	157, 511
BssHII	GCGCGC	1 cut(s)	38
BssMI	GATC	2 cut(s)	322, 357
BssNI	GRCGYC	1 cut(s)	132
BssSI	CACGAG	1 cut(s)	326
Bst2BI	CACGAG	1 cut(s)	326
BstACI	GRCGYC	1 cut(s)	132
BstBI	TTCGAA	1 cut(s)	308
BstC8I	GCNNGC	2 cut(s)	40, 651
BstDEI	CTNAG	2 cut(s)	124, 363
BstDSI	CCRYGG	2 cut(s)	157, 511
BstF5I	GGATG	1 cut(s)	101
BstFNI	CGCG	2 cut(s)	40, 210
BstH2I	RGCGCY	1 cut(s)	234
BstHHI	GCGC	4 cut(s)	40, 42, 212, 233
BstKTI	GATC	2 cut(s)	325, 360
BstMBI	GATC	2 cut(s)	322, 357
BstMWI	GCNNNNNNNGC	1 cut(s)	242
BstUI	CGCG	2 cut(s)	40, 210
BsuI	GTATCC	1 cut(s)	598
BsuRI	GGCC	7 cut(s)	108, 122, 146, 258, 347, 510, 649
BtgI	CCRYGG	2 cut(s)	157, 511
BtgZI	GCGATG	2 cut(s)	198, 303
BtsCI	GGATG	1 cut(s)	101
Cac8I	GCNNGC	2 cut(s)	40, 651
CfoI	GCGC	4 cut(s)	40, 42, 212, 233
Cfr13I	GGNCC	1 cut(s)	647
CviAII	CATG	2 cut(s)	13, 506
DdeI	CTNAG	2 cut(s)	124, 363
DpnI	GATC	2 cut(s)	324, 359
DpnII	GATC	2 cut(s)	322, 357
DrdI	GACNNNNNNGTC	1 cut(s)	134
DriI	GACNNNNNGTC	1 cut(s)	271
DseDI	GACNNNNNNGTC	1 cut(s)	134
EaeI	YGGCCR	4 cut(s)	106, 256, 345, 508
Eam1105I	GACNNNNNGTC	1 cut(s)	271
Eco88I	CYCGRG	1 cut(s)	299
EcoRI	GAATTC	1 cut(s)	578
FaeI	CATG	2 cut(s)	16, 509
FaiI	YATR	5 cut(s)	14, 71, 419, 507, 585
FatI	CATG	2 cut(s)	12, 505
FauI	CCCGC	1 cut(s)	96
FbaI	TGATCA	1 cut(s)	322
Fnu4HI	GCNGC	4 cut(s)	51, 234, 286, 591
FokI	GGATG	1 cut(s)	88
Fsp4HI	GCNGC	4 cut(s)	51, 234, 286, 591
FspBI	CTAG	3 cut(s)	171, 314, 432
GlaI	GCGC	4 cut(s)	39, 41, 211, 232
GluI	GCNGC	4 cut(s)	51, 234, 286, 591
HaeII	RGCGCY	1 cut(s)	234
HaeIII	GGCC	7 cut(s)	108, 122, 146, 258, 347, 510, 649
HapII	CCGG	2 cut(s)	105, 119
HhaI	GCGC	4 cut(s)	40, 42, 212, 233
Hin1I	GRCGYC	1 cut(s)	132
Hin1II	CATG	2 cut(s)	16, 509
Hin6I	GCGC	4 cut(s)	38, 40, 210, 231
HinP1I	GCGC	4 cut(s)	38, 40, 210, 231
HincII	GTYRAC	1 cut(s)	571
HindII	GTYRAC	1 cut(s)	571
HindIII	AAGCTT	1 cut(s)	365
HinfI	GANTC	5 cut(s)	115, 269, 466, 520, 598
HpaII	CCGG	2 cut(s)	105, 119
Hpy166II	GTNNAC	1 cut(s)	571
Hpy188I	TCNGA	4 cut(s)	20, 127, 381, 546
Hpy188III	TCNNGA	3 cut(s)	301, 326, 602
Hpy8I	GTNNAC	1 cut(s)	571
Hpy99I	CGWCG	6 cut(s)	24, 134, 137, 140, 269, 550
HpyAV	CCTTC	3 cut(s)	94, 346, 631
HpyCH4IV	ACGT	1 cut(s)	132
HpyCH4V	TGCA	2 cut(s)	406, 458
HpyF10VI	GCNNNNNNNGC	1 cut(s)	242
HpyF3I	CTNAG	2 cut(s)	124, 363
HpySE526I	ACGT	1 cut(s)	132
Hsp92I	GRCGYC	1 cut(s)	132
Hsp92II	CATG	2 cut(s)	16, 509
HspAI	GCGC	4 cut(s)	38, 40, 210, 231
Ksp22I	TGATCA	1 cut(s)	322
Kzo9I	GATC	2 cut(s)	322, 357
LmnI	GCTCC	2 cut(s)	21, 547
LpnPI	CCDG	7 cut(s)	118, 132, 251, 411, 423, 429, 587
LweI	GCATC	2 cut(s)	18, 221
MaeI	CTAG	3 cut(s)	171, 314, 432
MaeII	ACGT	1 cut(s)	132
MalI	GATC	2 cut(s)	324, 359
MbiI	CCGCTC	1 cut(s)	285
MboI	GATC	2 cut(s)	322, 357
MlsI	TGGCCA	1 cut(s)	347
MluCI	AATT	3 cut(s)	202, 491, 578
MluNI	TGGCCA	1 cut(s)	347
MlyI	GAGTC	2 cut(s)	278, 607
MmeI	TCCRAC	3 cut(s)	43, 372, 569
Mox20I	TGGCCA	1 cut(s)	347
MscI	TGGCCA	1 cut(s)	347
MslI	CAYNNNNRTG	1 cut(s)	510
Msp20I	TGGCCA	1 cut(s)	347
MspI	CCGG	2 cut(s)	105, 119
MvnI	CGCG	2 cut(s)	40, 210
MwoI	GCNNNNNNNGC	1 cut(s)	242
NdeII	GATC	2 cut(s)	322, 357
NlaIII	CATG	2 cut(s)	16, 509
NlaIV	GGNNCC	4 cut(s)	195, 396, 543, 594
NspV	TTCGAA	1 cut(s)	308
PaeR7I	CTCGAG	1 cut(s)	299
PauI	GCGCGC	1 cut(s)	38
PcsI	WCGNNNNNNNCGW	3 cut(s)	54, 138, 261
PfeI	GAWTC	3 cut(s)	115, 466, 520
PflFI	GACNNNGTC	2 cut(s)	131, 134
PkrI	GCNGC	4 cut(s)	52, 235, 287, 592
PleI	GAGTC	2 cut(s)	277, 606
PpsI	GAGTC	2 cut(s)	277, 606
PspN4I	GGNNCC	4 cut(s)	195, 396, 543, 594
PspPI	GGNCC	1 cut(s)	647
PsyI	GACNNNGTC	2 cut(s)	131, 134
PteI	GCGCGC	1 cut(s)	38
RseI	CAYNNNNRTG	1 cut(s)	510
SatI	GCNGC	4 cut(s)	51, 234, 286, 591
Sau3AI	GATC	2 cut(s)	322, 357
Sau96I	GGNCC	1 cut(s)	647
SchI	GAGTC	2 cut(s)	278, 607
SetI	ASST	9 cut(s)	48, 135, 155, 172, 300, 315, 369, 388, 655
SfaNI	GCATC	2 cut(s)	18, 221
Sfr274I	CTCGAG	1 cut(s)	299
SfuI	TTCGAA	1 cut(s)	308
SlaI	CTCGAG	1 cut(s)	299
SmiMI	CAYNNNNRTG	1 cut(s)	510
SmlI	CTYRAG	1 cut(s)	299
SmoI	CTYRAG	1 cut(s)	299
Sse9I	AATT	3 cut(s)	202, 491, 578
SsiI	CCGC	6 cut(s)	51, 76, 89, 234, 285, 590
SspMI	CTAG	3 cut(s)	171, 314, 432
TaiI	ACGT	1 cut(s)	135
TaqI	TCGA	5 cut(s)	32, 57, 185, 300, 308
TasI	AATT	3 cut(s)	202, 491, 578
TauI	GCSGC	4 cut(s)	53, 236, 288, 593
TfiI	GAWTC	3 cut(s)	115, 466, 520
TspGWI	ACGGA	1 cut(s)	37
Tth111I	GACNNNGTC	2 cut(s)	131, 134
XapI	RAATTY	1 cut(s)	578
XhoI	CTCGAG	1 cut(s)	299
XspI	CTAG	3 cut(s)	171, 314, 432
ZraI	GACGTC	1 cut(s)	133

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