pycom09g15120

Pre-mRNA-splicing factor ATP-dependent RNA

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
pyrus_communis
Chr9
OG0000671
Physical Location & Seq
Forward (+)
15005965 .. 15006885
921 bp
Loading structure...
UTR
Exon/CDS
Intron
pycom09g15120.1

Sequence Viewer

Length: 921 bp
ATGGCGACTGTCGACAACGGTATGAAAAAGTTGGAGTACCTTTCGCTGGTCTCCAAAGTCTGTTCAGAGCTTGAAACGCATCTAGGGTTTGGGGACAAAGTTCTGGCGGAGTTCATCATCGAAATCGGACGGAACTGTGAGACGGTGGACGAATTCGACACCCGATTGAAGGAGAACGGCGCCGAGATGACAGACTACTTTGTCCGTTCACTCCTCACTATCGTCCACGCAATCCTTCCTCCGAAGCCGAAGCCGGAGAAAGACATTTCTGAAGGTAAGAAAACCAAGTTTAAGGCTTTGCCTATTGCTGATAATAGAGATAGAGTTAAGGAAATTGATAAGGAAATTGAGCTGGAGACCAGGGAGAAGCACACCGGCGTAGAGGAGCGGGGCGGCAAGTGTGAAGACAATAGGCAGAGAGGTAGAGATAGATATAGGGATGGGAATGGGGATGGAGATAGAGATAGAGATCGAGATCGTGATAAGCACAGAGCTAGGGATAGAGGTGGGAGAGACAGGGGAAGGGATAGGCATGATAGAGACGATAATTGTAAAAATTCACAATATAATGATGATGACGGGGAAAAAAAAAGGTATACAAATCAATATGATAAGCATAAGAGAGATGGGTATGAAGAGAATGGAAATGATAGAGTGGATGAAGATGCTAGGAGAGGTAATAGGGATAGGCGGAATGGTCCTAGTAAGAACCTTTCCAATGAGCCTGAATTGTACCAAGTGTATAGGCGTAGGGTTTCGAGAATGACGGACACTGGTTGCTTTGTTCAGTTAAATGATTTGAGAGGGAAGGAAGGTTTGGTTCATGTTTCACAAATGGCAACTCGGCGAATTAGTAATGCTAAGGATGTGATGAAGCGGGATCAGGAAGTTTATGTGAAGGTGATTTCGATTTTGGGTTAG
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko03040 map03040
Pfam Domains
Protein Families
DEAD HA2 Helicase_C OB_NTP_bind S1

Protein Analysis

307

Amino Acids

35.65

Weight (kDa)

8.44

Isoelectric Point (pI)

26.19

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
S1 PF00575 247 - 303 2.1e-08 S1 RNA binding domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
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Orthologous Genes (Group: OG0000671)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G26560
fragaria_vesca FvH4_3g44820 FvH4_4g07500 FvH4_4g07500 FvH4_4g07500 FvH4_4g07850 FvH4_4g07850 FvH4_7g12750
malus_domestica MD09G1231900.v1.1 MD15G1068900.v1.1 MD15G1069000.v1.1 MD16G1254900.v1.1 MD17G1229800.v1.1
prunus_persica Prupe.1G082300_v2.0.a1 Prupe.1G368500_v2.0.a1 Prupe.1G422500_v2.0.a1 Prupe.2G077500_v2.0.a1 Prupe.2G077900_v2.0.a1 Prupe.2G077900_v2.0.a1 Prupe.2G078200_v2.0.a1
pyrus_communis pycom08g06730 pycom09g15120 pycom15g06530 pycom16g21640 pycom17g23220 pycom17g23230 pycom17g23240
rosa_chinensis RchiOBHm_Chr1g0351781 RchiOBHm_Chr4g0400041 RchiOBHm_Chr4g0401121 RchiOBHm_Chr5g0079971 RchiOBHm_Chr5g0081521 RchiOBHm_Chr7g0219091
rosa_laevigata RLG00000009162 RLG00000009217 RLG00000028384 RLG00000036944
rosa_multiflora Rmu_co8434143.1_g000001 Rmu_sc0001909.1_g000017 Rmu_sc0001909.1_g000025 Rmu_sc0001933.1_g000012 Rmu_sc0004005.1_g000001 Rmu_sc0007702.1_g000002 Rmu_sc0010608.1_g000004
rosa_roxburghii Rroxscaffold_1G00002030 Rroxscaffold_4G00303550 Rroxscaffold_5G00345000 Rroxscaffold_5G00345950 Rroxscaffold_5G00345970
rosa_rugosa Rorug01G0221400 Rorug01G0221500 Rorug04G0022300 Rorug04G0022400 Rorug04G0028000 Rorug05G0476900
rosa_samantha Rh1AG235400 Rh1BG205800 Rh1CG220000 Rh1DG232900 Rh2AG475800 Rh2BG083000 Rh2CG085000 Rh4AG097800 Rh4AG105600 Rh4AG109800 Rh4BG095800 Rh4CG107200 Rh4CG114200 Rh4DG092600 Rh4DG097800 Rh5BG553100 Rh5DG563200
rosa_wichuraiana Rw1G020490 Rw4G008160 Rw4G008530 Rw5G049150

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 200
AccB1I GGYRCC 1 cut(s) 179
AccBSI CCGCTC 1 cut(s) 388
AccI GTMKAC 2 cut(s) 12, 596
AciI CCGC 5 cut(s) 107, 388, 393, 691, 877
AclWI GGATC 1 cut(s) 888
AcsI RAATTY 2 cut(s) 152, 556
AcuI CTGAAG 1 cut(s) 291
AcyI GRCGYC 1 cut(s) 180
AfaI GTAC 2 cut(s) 38, 734
AfiI CCNNNNNNNGG 2 cut(s) 46, 169
AgsI TTSAA 2 cut(s) 74, 169
AjnI CCWGG 1 cut(s) 359
AjuI GAANNNNNNNTTGG 2 cut(s) 800, 832
AluBI AGCT 3 cut(s) 70, 352, 494
AluI AGCT 3 cut(s) 70, 352, 494
Alw26I GTCTC 5 cut(s) 55, 134, 350, 507, 534
AlwI GGATC 1 cut(s) 888
ApoI RAATTY 2 cut(s) 152, 556
AspLEI GCGC 1 cut(s) 182
AspS9I GGNCC 1 cut(s) 698
AsuHPI GGTGA 1 cut(s) 913
AvaII GGWCC 1 cut(s) 698
BanI GGYRCC 1 cut(s) 179
BbsI GAAGAC 1 cut(s) 411
BccI CCATC 3 cut(s) 434, 446, 620
BceAI ACGGC 1 cut(s) 193
BciT130I CCWGG 1 cut(s) 361
BcoDI GTCTC 5 cut(s) 55, 134, 350, 507, 534
BfaI CTAG 4 cut(s) 83, 495, 669, 702
BfoI RGCGCY 1 cut(s) 183
BisI GCNGC 1 cut(s) 394
BlsI GCNGC 1 cut(s) 395
Bme1390I CCNGG 1 cut(s) 361
Bme18I GGWCC 1 cut(s) 698
BmgT120I GGNCC 1 cut(s) 698
BmiI GGNNCC 1 cut(s) 181
BmrFI CCNGG 1 cut(s) 361
BmsI GCATC 2 cut(s) 88, 655
BpiI GAAGAC 1 cut(s) 411
BpmI CTGGAG 1 cut(s) 374
Bpu10I CCTNAGC 1 cut(s) 861
BsaBI GATNNNNATC 2 cut(s) 468, 474
BsaHI GRCGYC 1 cut(s) 180
BsaI GGTCTC 2 cut(s) 55, 350
BsaJI CCNNGG 1 cut(s) 360
Bsc4I CCNNNNNNNGG 2 cut(s) 46, 169
Bse118I RCCGGY 1 cut(s) 374
Bse1I ACTGG 1 cut(s) 778
Bse8I GATNNNNATC 2 cut(s) 468, 474
BseBI CCWGG 1 cut(s) 361
BseDI CCNNGG 1 cut(s) 360
BseGI GGATG 4 cut(s) 445, 457, 664, 871
BseJI GATNNNNATC 2 cut(s) 468, 474
BseLI CCNNNNNNNGG 2 cut(s) 46, 169
BseNI ACTGG 1 cut(s) 778
BseRI GAGGAG 2 cut(s) 203, 398
BshNI GGYRCC 1 cut(s) 179
BsiSI CCGG 2 cut(s) 254, 375
BslFI GGGAC 1 cut(s) 107
BslI CCNNNNNNNGG 2 cut(s) 46, 169
BsmAI GTCTC 5 cut(s) 55, 134, 350, 507, 534
BsmBI CGTCTC 2 cut(s) 134, 534
BsmFI GGGAC 1 cut(s) 107
Bso31I GGTCTC 2 cut(s) 55, 350
Bsp143I GATC 3 cut(s) 469, 475, 880
BspACI CCGC 5 cut(s) 107, 388, 393, 691, 877
BspLI GGNNCC 1 cut(s) 181
BspPI GGATC 1 cut(s) 888
BspT107I GGYRCC 1 cut(s) 179
BspTNI GGTCTC 2 cut(s) 55, 350
BsrBI CCGCTC 1 cut(s) 388
BsrFI RCCGGY 1 cut(s) 374
BsrI ACTGG 1 cut(s) 778
BssAI RCCGGY 1 cut(s) 374
BssECI CCNNGG 1 cut(s) 360
BssMI GATC 3 cut(s) 469, 475, 880
BssNAI GTATAC 1 cut(s) 597
BssNI GRCGYC 1 cut(s) 180
Bst1107I GTATAC 1 cut(s) 597
Bst2UI CCWGG 1 cut(s) 361
Bst4CI ACNGT 4 cut(s) 10, 20, 137, 145
Bst6I CTCTTC 1 cut(s) 630
BstACI GRCGYC 1 cut(s) 180
BstDEI CTNAG 1 cut(s) 861
BstF5I GGATG 4 cut(s) 445, 457, 664, 871
BstH2I RGCGCY 1 cut(s) 183
BstHHI GCGC 1 cut(s) 182
BstKTI GATC 3 cut(s) 472, 478, 883
BstMAI GTCTC 5 cut(s) 55, 134, 350, 507, 534
BstMBI GATC 3 cut(s) 469, 475, 880
BstMWI GCNNNNNNNGC 1 cut(s) 76
BstNI CCWGG 1 cut(s) 361
BstSCI CCNGG 1 cut(s) 359
BstV2I GAAGAC 1 cut(s) 411
BstZ17I GTATAC 1 cut(s) 597
BtsCI GGATG 4 cut(s) 445, 457, 664, 871
BtsIMutI CAGTG 1 cut(s) 771
CfoI GCGC 1 cut(s) 182
Cfr10I RCCGGY 1 cut(s) 374
Cfr13I GGNCC 1 cut(s) 698
Csp6I GTAC 2 cut(s) 37, 733
CviAII CATG 2 cut(s) 533, 824
CviJI RGCY 7 cut(s) 70, 247, 253, 296, 352, 494, 724
CviKI_1 RGCY 7 cut(s) 70, 247, 253, 296, 352, 494, 724
CviQI GTAC 2 cut(s) 37, 733
DdeI CTNAG 1 cut(s) 861
DinI GGCGCC 1 cut(s) 181
DpnI GATC 3 cut(s) 471, 477, 882
DpnII GATC 3 cut(s) 469, 475, 880
DrdI GACNNNNNNGTC 1 cut(s) 200
DseDI GACNNNNNNGTC 1 cut(s) 200
Eam1104I CTCTTC 1 cut(s) 630
EarI CTCTTC 1 cut(s) 630
EciI GGCGGA 2 cut(s) 122, 706
Eco31I GGTCTC 2 cut(s) 55, 350
Eco47I GGWCC 1 cut(s) 698
Eco57I CTGAAG 1 cut(s) 291
EcoRI GAATTC 1 cut(s) 152
EcoRII CCWGG 1 cut(s) 359
EgeI GGCGCC 1 cut(s) 181
EheI GGCGCC 1 cut(s) 181
Esp3I CGTCTC 2 cut(s) 134, 534
FaeI CATG 2 cut(s) 536, 827
FaqI GGGAC 1 cut(s) 107
FatI CATG 2 cut(s) 532, 823
FauI CCCGC 2 cut(s) 381, 870
FblI GTMKAC 2 cut(s) 12, 596
Fnu4HI GCNGC 1 cut(s) 394
FokI GGATG 4 cut(s) 452, 464, 671, 878
Fsp4HI GCNGC 1 cut(s) 394
FspBI CTAG 4 cut(s) 83, 495, 669, 702
GlaI GCGC 1 cut(s) 181
GluI GCNGC 1 cut(s) 394
GsuI CTGGAG 1 cut(s) 374
HaeII RGCGCY 1 cut(s) 183
HapII CCGG 2 cut(s) 254, 375
HhaI GCGC 1 cut(s) 182
Hin1I GRCGYC 1 cut(s) 180
Hin1II CATG 2 cut(s) 536, 827
Hin6I GCGC 1 cut(s) 180
HinP1I GCGC 1 cut(s) 180
HincII GTYRAC 1 cut(s) 13
HindII GTYRAC 1 cut(s) 13
HpaII CCGG 2 cut(s) 254, 375
HphI GGTGA 1 cut(s) 913
Hpy166II GTNNAC 5 cut(s) 13, 148, 209, 226, 597
Hpy188I TCNGA 4 cut(s) 67, 128, 243, 271
Hpy188III TCNNGA 4 cut(s) 473, 479, 759, 884
Hpy8I GTNNAC 5 cut(s) 13, 148, 209, 226, 597
HpyAV CCTTC 7 cut(s) 163, 245, 266, 516, 802, 806, 892
HpyCH4III ACNGT 4 cut(s) 10, 20, 137, 145
HpyF10VI GCNNNNNNNGC 1 cut(s) 76
HpyF3I CTNAG 1 cut(s) 861
Hsp92I GRCGYC 1 cut(s) 180
Hsp92II CATG 2 cut(s) 536, 827
HspAI GCGC 1 cut(s) 180
KasI GGCGCC 1 cut(s) 179
Kzo9I GATC 3 cut(s) 469, 475, 880
LmnI GCTCC 1 cut(s) 385
LweI GCATC 2 cut(s) 88, 655
MaeI CTAG 4 cut(s) 83, 495, 669, 702
MalI GATC 3 cut(s) 471, 477, 882
MbiI CCGCTC 1 cut(s) 388
MboI GATC 3 cut(s) 469, 475, 880
MboII GAAGA 3 cut(s) 416, 647, 674
MluCI AATT 7 cut(s) 152, 333, 345, 547, 556, 728, 849
Mly113I GGCGCC 1 cut(s) 180
MmeI TCCRAC 1 cut(s) 12
MnlI CCTC 7 cut(s) 224, 249, 376, 413, 497, 668, 797
MseI TTAA 3 cut(s) 291, 327, 791
MspI CCGG 2 cut(s) 254, 375
MspR9I CCNGG 1 cut(s) 361
MvaI CCWGG 1 cut(s) 361
MwoI GCNNNNNNNGC 1 cut(s) 76
NarI GGCGCC 1 cut(s) 180
NdeII GATC 3 cut(s) 469, 475, 880
NlaIII CATG 2 cut(s) 536, 827
NlaIV GGNNCC 1 cut(s) 181
NmeAIII GCCGAG 2 cut(s) 208, 823
PkrI GCNGC 1 cut(s) 395
PluTI GGCGCC 1 cut(s) 183
Psp6I CCWGG 1 cut(s) 359
PspGI CCWGG 1 cut(s) 359
PspN4I GGNNCC 1 cut(s) 181
PspPI GGNCC 1 cut(s) 698
RsaI GTAC 2 cut(s) 38, 734
RsaNI GTAC 2 cut(s) 37, 733
SalI GTCGAC 1 cut(s) 11
SaqAI TTAA 3 cut(s) 291, 327, 791
SatI GCNGC 1 cut(s) 394
Sau3AI GATC 3 cut(s) 469, 475, 880
Sau96I GGNCC 1 cut(s) 698
ScrFI CCNGG 1 cut(s) 361
SfaNI GCATC 2 cut(s) 88, 655
SfoI GGCGCC 1 cut(s) 181
SgrAI CRCCGGYG 1 cut(s) 374
SinI GGWCC 1 cut(s) 698
Sse9I AATT 7 cut(s) 152, 333, 345, 547, 556, 728, 849
SsiI CCGC 5 cut(s) 107, 388, 393, 691, 877
SspDI GGCGCC 1 cut(s) 179
SspMI CTAG 4 cut(s) 83, 495, 669, 702
StyD4I CCNGG 1 cut(s) 359
TaaI ACNGT 4 cut(s) 10, 20, 137, 145
TaqI TCGA 6 cut(s) 12, 120, 156, 472, 758, 908
TasI AATT 7 cut(s) 152, 333, 345, 547, 556, 728, 849
TauI GCSGC 1 cut(s) 396
Tru1I TTAA 3 cut(s) 291, 327, 791
Tru9I TTAA 3 cut(s) 291, 327, 791
TscAI CASTG 1 cut(s) 778
TspDTI ATGAA 6 cut(s) 38, 103, 648, 675, 812, 887
TspGWI ACGGA 3 cut(s) 145, 194, 782
TspRI CASTG 1 cut(s) 778
VpaK11BI GGWCC 1 cut(s) 698
XapI RAATTY 2 cut(s) 152, 556
XmiI GTMKAC 2 cut(s) 12, 596
XspI CTAG 4 cut(s) 83, 495, 669, 702
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.