Protein : Qrob_P0112970.2 Q. robur
Protein Identifier  ? Qrob_P0112970.2 Organism . Name  Quercus robur
Score  55.4 Score Type  egn
Protein Description  (M=3) K11095 - U1 small nuclear ribonucleoprotein C Gene Prediction Quality  validated
Protein length 

Sequence

Length: 249  
Kegg Orthology  K11095
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0 Synonyms

6 GO Terms

Identifier Name Description
GO:0008270 zinc ion binding Interacting selectively and non-covalently with zinc (Zn) ions.
GO:0003676 nucleic acid binding Interacting selectively and non-covalently with any nucleic acid.
GO:0005685 U1 snRNP A ribonucleoprotein complex that contains small nuclear RNA U1.
GO:0005634 nucleus A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.
GO:0000398 mRNA splicing, via spliceosome The joining together of exons from one or more primary transcripts of messenger RNA (mRNA) and the excision of intron sequences, via a spliceosomal mechanism, so that mRNA consisting only of the joined exons is produced.
GO:0000387 spliceosomal snRNP assembly The aggregation, arrangement and bonding together of one or more snRNA and multiple protein components to form a ribonucleoprotein complex that is involved in formation of the spliceosome.

28 Blast

Analysis Hit Start End Strand Length Note Hit Coverage Hit Length Hit Pident E Val Hit Description
blastp_kegg lcl|tcc:TCM_043735 1 248 + 248 Gaps:52 100.00 208 67.31 6e-81 C2H2 and C2HC zinc fingers superfamily protein isoform 1
blastp_kegg lcl|vvi:100263028 1 248 + 248 Gaps:59 100.00 213 68.54 2e-70 uncharacterized LOC100263028
blastp_kegg lcl|rcu:RCOM_0556840 1 248 + 248 Gaps:44 100.00 206 67.48 3e-67 U1 small nuclear ribonucleoprotein C putative
blastp_kegg lcl|pmum:103333851 1 248 + 248 Gaps:51 100.00 207 64.73 4e-67 U1 small nuclear ribonucleoprotein C
blastp_kegg lcl|pop:POPTR_0003s05710g 1 248 + 248 Gaps:7 87.62 202 76.27 1e-64 POPTRDRAFT_712203 proline-rich family protein
blastp_kegg lcl|pper:PRUPE_ppa009808mg 1 248 + 248 Gaps:51 75.00 276 62.32 3e-62 hypothetical protein
blastp_kegg lcl|cam:101505430 1 248 + 248 Gaps:70 100.00 200 65.50 4e-62 U1 small nuclear ribonucleoprotein C-like
blastp_kegg lcl|csv:101229747 1 120 + 120 Gaps:10 57.87 197 87.72 1e-61 U1 small nuclear ribonucleoprotein C-like
blastp_kegg lcl|csv:101221793 1 120 + 120 Gaps:10 57.87 197 87.72 1e-61 U1 small nuclear ribonucleoprotein C-like
blastp_kegg lcl|gmx:100790892 1 248 + 248 Gaps:44 100.00 206 62.62 1e-61 U1 small nuclear ribonucleoprotein C-like
blastp_pdb 3cw1_L 1 66 + 66 Gaps:7 76.62 77 67.80 4e-22 mol:protein length:77 U1 small nuclear ribonucleoprotein C
blastp_pdb 2vrd_A 1 66 + 66 Gaps:7 96.72 61 69.49 5e-23 mol:protein length:61 U1 SMALL NUCLEAR RIBONUCLEOPROTEIN C
blastp_pdb 3cw1_l 1 66 + 66 Gaps:7 76.62 77 67.80 4e-22 mol:protein length:77 U1 small nuclear ribonucleoprotein C
blastp_pdb 3cw1_0 1 66 + 66 Gaps:7 76.62 77 67.80 4e-22 mol:protein length:77 U1 small nuclear ribonucleoprotein C
blastp_pdb 3cw1_9 1 66 + 66 Gaps:7 76.62 77 67.80 4e-22 mol:protein length:77 U1 small nuclear ribonucleoprotein C
blastp_uniprot_sprot sp|F6HQ26|RU1C_VITVI 1 248 + 248 Gaps:59 100.00 213 68.54 8e-72 U1 small nuclear ribonucleoprotein C OS Vitis vinifera GN VIT_07s0104g01170 PE 3 SV 1
blastp_uniprot_sprot sp|Q56XE4|RU1C_ARATH 1 117 + 117 Gaps:14 49.76 207 76.70 4e-46 U1 small nuclear ribonucleoprotein C OS Arabidopsis thaliana GN At4g03120 PE 1 SV 1
blastp_uniprot_sprot sp|C5XZK6|RU1C1_SORBI 1 113 + 113 Gaps:8 49.78 231 75.65 6e-46 U1 small nuclear ribonucleoprotein C-1 OS Sorghum bicolor GN Sb04g009880 PE 3 SV 1
blastp_uniprot_sprot sp|C5XYW4|RU1C2_SORBI 1 116 + 116 Gaps:11 50.44 228 75.65 1e-45 U1 small nuclear ribonucleoprotein C-2 OS Sorghum bicolor GN Sb04g028260 PE 3 SV 1
blastp_uniprot_sprot sp|A7SEP9|RU1C_NEMVE 1 65 + 65 Gaps:7 42.03 138 74.14 4e-21 U1 small nuclear ribonucleoprotein C OS Nematostella vectensis GN v1g244745 PE 3 SV 1
blastp_uniprot_sprot sp|Q8JGS0|RU1C_DANRE 1 66 + 66 Gaps:7 37.11 159 69.49 7e-21 U1 small nuclear ribonucleoprotein C OS Danio rerio GN snrpc PE 2 SV 1
blastp_uniprot_sprot sp|F7ARS3|RU1C_MONDO 1 66 + 66 Gaps:7 42.75 138 69.49 1e-20 U1 small nuclear ribonucleoprotein C OS Monodelphis domestica GN SNRPC PE 3 SV 1
blastp_uniprot_sprot sp|B0JYS7|RU1C_XENTR 1 66 + 66 Gaps:7 37.11 159 69.49 1e-20 U1 small nuclear ribonucleoprotein C OS Xenopus tropicalis GN snrpc PE 2 SV 1
blastp_uniprot_sprot sp|Q03369|RU1C_XENLA 1 66 + 66 Gaps:7 37.11 159 69.49 1e-20 U1 small nuclear ribonucleoprotein C OS Xenopus laevis GN snrpc PE 2 SV 1
blastp_uniprot_sprot sp|F6TFD9|RU1C_MACMU 1 66 + 66 Gaps:7 37.11 159 69.49 1e-20 U1 small nuclear ribonucleoprotein C OS Macaca mulatta GN SNRPC PE 3 SV 1
rpsblast_cdd gnl|CDD|114912 1 38 + 38 none 100.00 38 78.95 2e-17 pfam06220 zf-U1 U1 zinc finger. This family consists of several U1 small nuclear ribonucleoprotein C (U1-C) proteins. The U1 small nuclear ribonucleoprotein (U1 snRNP) binds to the pre-mRNA 5' splice site (ss) at early stages of spliceosome assembly. Recruitment of U1 to a class of weak 5' ss is promoted by binding of the protein TIA-1 to uridine-rich sequences immediately downstream from the 5' ss. Binding of TIA-1 in the vicinity of a 5' ss helps to stabilise U1 snRNP recruitment at least in part via a direct interaction with U1-C thus providing one molecular mechanism for the function of this splicing regulator. This domain is probably a zinc-binding. It is found in multiple copies in some members of the family.
rpsblast_cdd gnl|CDD|34737 1 43 + 43 none 22.87 188 51.16 1e-09 COG5136 COG5136 U1 snRNP-specific protein C [RNA processing and modification].
rpsblast_kog gnl|CDD|38664 1 126 + 126 Gaps:31 95.15 165 36.31 2e-17 KOG3454 KOG3454 KOG3454 U1 snRNP-specific protein C [RNA processing and modification].

8 Domain Motifs

Analysis Begin End Length Domain Identifier Cross Ref Description Inter Pro
ProSiteProfiles 4 36 33 PS50171 none Zinc finger matrin-type profile. IPR000690
SMART 1 37 37 SM00451 none U1-like zinc finger IPR003604
PANTHER 139 223 85 PTHR31148:SF1 none none none
SUPERFAMILY 1 55 55 SSF57667 none none none
Pfam 1 38 38 PF06220 none U1 zinc finger IPR013085
PANTHER 139 223 85 PTHR31148 none none IPR017340
PANTHER 2 72 71 PTHR31148 none none IPR017340
PANTHER 2 72 71 PTHR31148:SF1 none none none

0 Localization

3 Qtllist

Qtl Name Chromosome Name Linkage Group Prox Marker Dist Marker Position QTL Pos One Pos Two Test Type Test Value R 2
Bourran2_2015_nEpiBC_3P Qrob_Chr12 12 s_1B73S5_217 v_7050_211 28,31 26,37 28,45 lod 4.5 11.6
Bourran2_2002_QTL17_peak_Bud_burst_A4 Qrob_Chr12 12 s_1CTJ3J_556 s_1CTJ3J_556 0 0 25 lod 2,9 6
Bourran2_2014_nSeqBC_3P Qrob_Chr12 12 s_1EO8V5_710 s_1A2VMU_355 11,04 0 32,58 lod 1,7196 4,7

0 Targeting