pycom05g11220

Cold shock protein domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
pyrus_communis
Chr5
OG0017069
Physical Location & Seq
Reverse (-)
14735553 .. 14736179
627 bp
Loading structure...
UTR
Exon/CDS
Intron
pycom05g11220.1

Sequence Viewer

Length: 627 bp
ATGAGTGAGAGGCTGAGCGGCACCGTCAAGTGGTTCAATGACCAGAAGGGGTTCGGCTTCATAACCCCCAACGACGGCGGCGAGGATCTGTTCGTTCACCAGTCCTCGATCCGATCCGAAGGTTTCCGCACTCTTGGAGACGGCGAGACGGTCGAGTACACCGTCGAGGAGGATGCCGGTGGCCGAACCAAGGCTGTTGACGTGACTGGCCCAGAGGAGGGTCCCGTTCAGGGCAGCCGAGGCGGTGGGGGTGGTGGACGAGGCCGTGGAGGCGGCGGTGGTGGAGGCTACGGTTTTAACGGTGGCTCTGGAGGGCGAAGCGGTGGAGGTAGAGGTGGCCGAGGAGGTGGTGGGTATGGCGGAGGAGGCTACGGCTCGGGTGGTGGTGGGTACAGCTCAGGCGGTGGATACGGAGGTGGAGGCGGTGGCGGTGGCGCTTGCTTCAAGTGTGGTGAGTCTGGACACATGGCGAGGGACTGCTCTCAGGGAGGTGGAGGCTACGGAGGCGGTGGAGGCGGCTATGGAGGAGGCGGCCGTAGCGGTGGTGGAGGCGGAGGTGCTTCTGGAGGGTGCTACCAGTGCGGTGAGTCGGGCCATTTCGCTCGGGAGTGCCCGAACAGGGGTTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
CSD zf-CCHC

Protein Analysis

209

Amino Acids

19.49

Weight (kDa)

6.3

Isoelectric Point (pI)

56.63

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
CSD PF00313 6 - 70 1.2e-25 'Cold-shock' DNA-binding domain
zf-CCHC PF00098 146 - 162 1.1e-07 Zinc knuckle
zf-CCHC PF00098 190 - 206 6.3e-07 Zinc knuckle
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
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: OG0017069)

Species Orthologous Gene IDs
arabidopsis_thaliana AT2G21060 AT4G38680
fragaria_vesca FvH4_2g01580
malus_domestica MD10G1121500.v1.1
prunus_persica Prupe.8G163000_v2.0.a1
pyrus_communis pycom05g11220
rosa_chinensis RchiOBHm_Chr6g0244251
rosa_laevigata RLG00000015370
rosa_rugosa Rorug05G0507900
rosa_samantha Rh6BG018600 Rh6CG015700 Rh6DG016900
rosa_wichuraiana Rw6G001890

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 20
AccBSI CCGCTC 1 cut(s) 18
AclWI GGATC 3 cut(s) 93, 103, 108
AcoI YGGCCR 3 cut(s) 181, 337, 532
AfaI GTAC 2 cut(s) 158, 392
AfiI CCNNNNNNNGG 8 cut(s) 30, 74, 190, 217, 218, 230, 619, 620
AgsI TTSAA 2 cut(s) 37, 445
AjiI CACGTC 1 cut(s) 202
AluBI AGCT 1 cut(s) 396
AluI AGCT 1 cut(s) 396
Alw26I GTCTC 2 cut(s) 132, 140
AlwI GGATC 3 cut(s) 93, 103, 108
Ama87I CYCGRG 2 cut(s) 376, 603
AoxI GGCC 6 cut(s) 181, 208, 262, 337, 532, 592
ApeKI GCWGC 1 cut(s) 234
Asp700I GAANNNNTTC 1 cut(s) 50
AspLEI GCGC 1 cut(s) 437
AspS9I GGNCC 3 cut(s) 209, 221, 592
AsuHPI GGTGA 3 cut(s) 89, 464, 596
AvaI CYCGRG 2 cut(s) 376, 603
AvaII GGWCC 1 cut(s) 221
BaeGI GKGCMC 1 cut(s) 614
BaeI ACNNNNGTAYC 2 cut(s) 400, 433
BanI GGYRCC 1 cut(s) 20
BbvI GCAGC 1 cut(s) 246
BceAI ACGGC 5 cut(s) 91, 157, 249, 388, 519
BcgI CGANNNNNNTGC 2 cut(s) 155, 189
BciVI GTATCC 1 cut(s) 401
BcoDI GTCTC 2 cut(s) 132, 140
BfoI RGCGCY 1 cut(s) 438
BfuI GTATCC 1 cut(s) 401
BglI GCCNNNNNGGC 1 cut(s) 270
BisI GCNGC 6 cut(s) 19, 79, 235, 274, 517, 532
BlpI GCTNAGC 1 cut(s) 14
BlsI GCNGC 6 cut(s) 20, 80, 236, 275, 518, 533
Bme18I GGWCC 1 cut(s) 221
BmeT110I CYCGRG 2 cut(s) 376, 603
BmgBI CACGTC 1 cut(s) 202
BmgT120I GGNCC 3 cut(s) 209, 221, 592
BmiI GGNNCC 3 cut(s) 22, 222, 223
BmsI GCATC 1 cut(s) 163
BpmI CTGGAG 2 cut(s) 330, 585
Bpu10I CCTNAGC 1 cut(s) 397
Bpu1102I GCTNAGC 1 cut(s) 14
BsaJI CCNNGG 4 cut(s) 189, 238, 265, 340
Bsc4I CCNNNNNNNGG 8 cut(s) 30, 74, 190, 217, 218, 230, 619, 620
Bse118I RCCGGY 1 cut(s) 176
Bse1I ACTGG 3 cut(s) 100, 211, 577
BseDI CCNNGG 4 cut(s) 189, 238, 265, 340
BseGI GGATG 1 cut(s) 178
BseLI CCNNNNNNNGG 8 cut(s) 30, 74, 190, 217, 218, 230, 619, 620
BseMII CTCAG 3 cut(s) 5, 411, 497
BseNI ACTGG 3 cut(s) 100, 211, 577
BseRI GAGGAG 5 cut(s) 182, 230, 357, 378, 540
BseSI GKGCMC 1 cut(s) 614
BseX3I CGGCCG 1 cut(s) 532
BseXI GCAGC 1 cut(s) 246
Bsh1285I CGRYCG 2 cut(s) 153, 535
BshFI GGCC 6 cut(s) 183, 210, 264, 339, 534, 594
BshNI GGYRCC 1 cut(s) 20
BsiEI CGRYCG 2 cut(s) 153, 535
BsiHKCI CYCGRG 2 cut(s) 376, 603
BsiSI CCGG 1 cut(s) 177
BslFI GGGAC 2 cut(s) 207, 488
BslI CCNNNNNNNGG 8 cut(s) 30, 74, 190, 217, 218, 230, 619, 620
BsmAI GTCTC 2 cut(s) 132, 140
BsmBI CGTCTC 2 cut(s) 132, 140
BsmFI GGGAC 2 cut(s) 207, 488
BsnI GGCC 6 cut(s) 183, 210, 264, 339, 534, 594
BsoBI CYCGRG 2 cut(s) 376, 603
Bsp1286I GDGCHC 1 cut(s) 614
Bsp143I GATC 3 cut(s) 85, 108, 113
Bsp1720I GCTNAGC 1 cut(s) 14
BspANI GGCC 6 cut(s) 183, 210, 264, 339, 534, 594
BspCNI CTCAG 3 cut(s) 6, 410, 496
BspLI GGNNCC 3 cut(s) 22, 222, 223
BspPI GGATC 3 cut(s) 93, 103, 108
BspT107I GGYRCC 1 cut(s) 20
BsrBI CCGCTC 1 cut(s) 18
BsrFI RCCGGY 1 cut(s) 176
BsrI ACTGG 3 cut(s) 100, 211, 577
BssAI RCCGGY 1 cut(s) 176
BssECI CCNNGG 4 cut(s) 189, 238, 265, 340
BssMI GATC 3 cut(s) 85, 108, 113
BssT1I CCWWGG 1 cut(s) 189
Bst4CI ACNGT 5 cut(s) 25, 151, 163, 293, 302
BstC8I GCNNGC 1 cut(s) 439
BstDEI CTNAG 3 cut(s) 14, 397, 483
BstDSI CCRYGG 1 cut(s) 265
BstF5I GGATG 1 cut(s) 178
BstH2I RGCGCY 1 cut(s) 438
BstHHI GCGC 1 cut(s) 437
BstKTI GATC 3 cut(s) 88, 111, 116
BstMAI GTCTC 2 cut(s) 132, 140
BstMBI GATC 3 cut(s) 85, 108, 113
BstMCI CGRYCG 2 cut(s) 153, 535
BstMWI GCNNNNNNNGC 7 cut(s) 240, 270, 366, 504, 513, 537, 579
BstSLI GKGCMC 1 cut(s) 614
BstV1I GCAGC 1 cut(s) 246
BstX2I RGATCY 1 cut(s) 85
BstYI RGATCY 1 cut(s) 85
BstZI CGGCCG 1 cut(s) 532
BsuI GTATCC 1 cut(s) 401
BsuRI GGCC 6 cut(s) 183, 210, 264, 339, 534, 594
BtgI CCRYGG 1 cut(s) 265
BtrI CACGTC 1 cut(s) 202
BtsCI GGATG 1 cut(s) 178
BtsIMutI CAGTG 1 cut(s) 584
Cac8I GCNNGC 1 cut(s) 439
CfoI GCGC 1 cut(s) 437
Cfr10I RCCGGY 1 cut(s) 176
Cfr13I GGNCC 3 cut(s) 209, 221, 592
Csp6I GTAC 2 cut(s) 157, 391
CviAII CATG 1 cut(s) 466
CviQI GTAC 2 cut(s) 157, 391
DdeI CTNAG 3 cut(s) 14, 397, 483
DpnI GATC 3 cut(s) 87, 110, 115
DpnII GATC 3 cut(s) 85, 108, 113
EaeI YGGCCR 3 cut(s) 181, 337, 532
EagI CGGCCG 1 cut(s) 532
EciI GGCGGA 2 cut(s) 375, 567
EclXI CGGCCG 1 cut(s) 532
Eco130I CCWWGG 1 cut(s) 189
Eco47I GGWCC 1 cut(s) 221
Eco52I CGGCCG 1 cut(s) 532
Eco88I CYCGRG 2 cut(s) 376, 603
EcoO109I RGGNCCY 1 cut(s) 221
EcoT14I CCWWGG 1 cut(s) 189
ErhI CCWWGG 1 cut(s) 189
Esp3I CGTCTC 2 cut(s) 132, 140
FaeI CATG 1 cut(s) 469
FaiI YATR 4 cut(s) 62, 357, 467, 522
FaqI GGGAC 2 cut(s) 207, 488
FatI CATG 1 cut(s) 465
Fnu4HI GCNGC 6 cut(s) 19, 79, 235, 274, 517, 532
FokI GGATG 1 cut(s) 185
Fsp4HI GCNGC 6 cut(s) 19, 79, 235, 274, 517, 532
GlaI GCGC 1 cut(s) 436
GluI GCNGC 6 cut(s) 19, 79, 235, 274, 517, 532
GsuI CTGGAG 2 cut(s) 330, 585
HaeII RGCGCY 1 cut(s) 438
HaeIII GGCC 6 cut(s) 183, 210, 264, 339, 534, 594
HapII CCGG 1 cut(s) 177
HhaI GCGC 1 cut(s) 437
Hin1II CATG 1 cut(s) 469
Hin6I GCGC 1 cut(s) 435
HinP1I GCGC 1 cut(s) 435
HincII GTYRAC 1 cut(s) 199
HindII GTYRAC 1 cut(s) 199
HinfI GANTC 2 cut(s) 455, 587
HpaII CCGG 1 cut(s) 177
HphI GGTGA 3 cut(s) 89, 464, 596
Hpy166II GTNNAC 4 cut(s) 97, 159, 199, 257
Hpy188I TCNGA 2 cut(s) 113, 118
Hpy188III TCNNGA 4 cut(s) 309, 459, 564, 605
Hpy8I GTNNAC 4 cut(s) 97, 159, 199, 257
Hpy99I CGWCG 2 cut(s) 77, 167
HpyAV CCTTC 2 cut(s) 40, 113
HpyCH4III ACNGT 5 cut(s) 25, 151, 163, 293, 302
HpyCH4IV ACGT 1 cut(s) 201
HpyF10VI GCNNNNNNNGC 7 cut(s) 240, 270, 366, 504, 513, 537, 579
HpyF3I CTNAG 3 cut(s) 14, 397, 483
HpySE526I ACGT 1 cut(s) 201
Hsp92II CATG 1 cut(s) 469
HspAI GCGC 1 cut(s) 435
KflI GGGWCCC 1 cut(s) 221
Kzo9I GATC 3 cut(s) 85, 108, 113
Lsp1109I GCAGC 1 cut(s) 246
LweI GCATC 1 cut(s) 163
MaeII ACGT 1 cut(s) 201
MaeIII GTNAC 1 cut(s) 202
MalI GATC 3 cut(s) 87, 110, 115
MbiI CCGCTC 1 cut(s) 18
MboI GATC 3 cut(s) 85, 108, 113
MflI RGATCY 1 cut(s) 85
MhlI GDGCHC 1 cut(s) 614
MlyI GAGTC 2 cut(s) 464, 596
MroXI GAANNNNTTC 1 cut(s) 50
MseI TTAA 2 cut(s) 297, 625
MspI CCGG 1 cut(s) 177
MwoI GCNNNNNNNGC 7 cut(s) 240, 270, 366, 504, 513, 537, 579
NdeII GATC 3 cut(s) 85, 108, 113
NlaIII CATG 1 cut(s) 469
NlaIV GGNNCC 3 cut(s) 22, 222, 223
NmeAIII GCCGAG 2 cut(s) 263, 365
NmuCI GTSAC 1 cut(s) 202
PcsI WCGNNNNNNNCGW 2 cut(s) 78, 159
PdmI GAANNNNTTC 1 cut(s) 50
PkrI GCNGC 6 cut(s) 20, 80, 236, 275, 518, 533
PleI GAGTC 2 cut(s) 463, 595
PpsI GAGTC 2 cut(s) 463, 595
PpuMI RGGWCCY 1 cut(s) 221
Psp5II RGGWCCY 1 cut(s) 221
PspN4I GGNNCC 3 cut(s) 22, 222, 223
PspPI GGNCC 3 cut(s) 209, 221, 592
PspPPI RGGWCCY 1 cut(s) 221
PsuI RGATCY 1 cut(s) 85
RsaI GTAC 2 cut(s) 158, 392
RsaNI GTAC 2 cut(s) 157, 391
SaqAI TTAA 2 cut(s) 297, 625
SatI GCNGC 6 cut(s) 19, 79, 235, 274, 517, 532
Sau3AI GATC 3 cut(s) 85, 108, 113
Sau96I GGNCC 3 cut(s) 209, 221, 592
SchI GAGTC 2 cut(s) 464, 596
SduI GDGCHC 1 cut(s) 614
SetI ASST 9 cut(s) 124, 204, 331, 337, 349, 398, 418, 493, 559
SfaNI GCATC 1 cut(s) 163
SinI GGWCC 1 cut(s) 221
StyI CCWWGG 1 cut(s) 189
TaaI ACNGT 5 cut(s) 25, 151, 163, 293, 302
TaiI ACGT 1 cut(s) 204
TaqI TCGA 3 cut(s) 107, 153, 165
TatI WGTACW 1 cut(s) 156
TauI GCSGC 5 cut(s) 21, 81, 276, 519, 534
Tru1I TTAA 2 cut(s) 297, 625
Tru9I TTAA 2 cut(s) 297, 625
TscAI CASTG 1 cut(s) 584
TseFI GTSAC 1 cut(s) 202
TseI GCWGC 1 cut(s) 234
Tsp45I GTSAC 1 cut(s) 202
TspDTI ATGAA 1 cut(s) 49
TspGWI ACGGA 2 cut(s) 426, 516
TspRI CASTG 1 cut(s) 584
VpaK11BI GGWCC 1 cut(s) 221
XmnI GAANNNNTTC 1 cut(s) 50
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.