Table 1.
List of in/del and normal sequence binding proteins
| In/del sequence specific binding proteins | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| No. | Identified proteins (24/275) | Accession number | Molecular weight (kDa) | Taxonomy | In/del 001 | In/del 002 | In/del 003 | Normal 001 | Normal 002 | Normal 003 |
| 1 | General transcription factor II-I OS=Mus musculus GN=Gtf2i PE=1 SV=3 | GTF2I_MOUSE | 112 | Mus musculus | 7 | 6 | 4 | 0 | 0 | 0 |
| 2 | Splicing factor 3A subunit 1 OS=Mus musculus GN=Sf3a1 PE=1 SV=1 | SF3A1_MOUSE | 89 | Mus musculus | 4 | 3 | 4 | 0 | 0 | 0 |
| 3 | U2 snRNP-associated SURP motif-containing protein OS=Mus musculus GN=U2surp PE=2 SV=3 | SR140_MOUSE | 118 | Mus musculus | 4 | 3 | 1 | 0 | 0 | 0 |
| 4 | Cleavage stimulation factor subunit 1 OS=Mus musculus GN=Cstf1 PE=2 SV=1 | CSTF1_MOUSE | 48 | Mus musculus | 4 | 2 | 4 | 0 | 0 | 0 |
| 5 | Pre-mRNA-processing factor 19 OS=Mus musculus GN=Prpf19 PE=1 SV=1 | PRP19_MOUSE | 55 | Mus musculus | 3 | 5 | 7 | 0 | 0 | 0 |
| 6 | U1 small nuclear ribonucleoprotein A OS=Mus musculus GN=Snrpa PE=2 SV=3 | SNRPA_MOUSE | 32 | Mus musculus | 3 | 3 | 2 | 0 | 0 | 0 |
| 7 | THO complex subunit 4 OS=Mus musculus GN=Alyref PE=1 SV=3 | THOC4_MOUSE | 27 | Mus musculus | 3 | 2 | 3 | 0 | 0 | 0 |
| 8 | ATP-dependent RNA helicase DDX42 OS=Mus musculus GN=Ddx42 PE=1 SV=3 | DDX42_MOUSE | 102 | Mus musculus | 3 | 2 | 3 | 0 | 0 | 0 |
| 9 | 78 kDa glucose-regulated protein OS=Mus musculus GN=Hspa5 PE=1 SV=3 | GRP78_MOUSE | 72 | Mus musculus | 3 | 1 | 1 | 0 | 0 | 0 |
| 10 | Splicing factor 45 OS=Mus musculus GN=Rbm17 PE=1 SV=1 | SPF45_MOUSE | 45 | Mus musculus | 2 | 3 | 3 | 0 | 0 | 0 |
| 11 | Flap endonuclease 1 OS=Mus musculus GN=Fen1 PE=1 SV=1 | FEN1_MOUSE | 42 | Mus musculus | 2 | 2 | 2 | 0 | 0 | 0 |
| 12 | E3 ubiquitin/ISG15 ligase TRIM25 OS=Mus musculus GN=Trim25 PE=1 SV=2 | TRI25_MOUSE | 72 | Mus musculus | 2 | 1 | 2 | 0 | 0 | 0 |
| 13 | PC4 and SFRS1-interacting protein OS=Mus musculus GN=Psip1 PE=1 SV=1 | PSIP1_MOUSE | 60 | Mus musculus | 1 | 3 | 2 | 0 | 0 | 0 |
| 14 | Heterogeneous nuclear ribonucleoprotein D-like OS=Mus musculus GN=Hnrnpdl PE=1 SV=1 | HNRDL_MOUSE | 34 | Mus musculus | 1 | 2 | 2 | 0 | 0 | 0 |
| 15 | Small nuclear ribonucleoprotein Sm D2 OS=Mus musculus GN=Snrpd2 PE=2 SV=1 | SMD2_MOUSE | 14 | Mus musculus | 1 | 2 | 1 | 0 | 0 | 0 |
| 16 | H/ACA ribonucleoprotein complex subunit 1 OS=Mus musculus GN=Gar1 PE=2 SV=1 | GAR1_MOUSE | 23 | Mus musculus | 1 | 1 | 2 | 0 | 0 | 0 |
| 17 | 60S ribosomal protein L14 OS=Mus musculus GN=Rpl14 PE=1 SV=3 | RL14_MOUSE | 24 | Mus musculus | 1 | 1 | 2 | 0 | 0 | 0 |
| 18 | 40S ribosomal protein S25 OS=Mus musculus GN=Rps25 PE=1 SV=1 | RS25_MOUSE | 14 | Mus musculus | 1 | 1 | 2 | 0 | 0 | 0 |
| 19 | ELAV-like protein 1 OS=Mus musculus GN=Elavl1 PE=1 SV=2 | ELAV1_MOUSE | 36 | Mus musculus | 1 | 1 | 2 | 0 | 0 | 0 |
| 20 | Zinc finger CCCH-type antiviral protein 1 OS=Mus musculus GN=Zc3hav1 PE=1 SV=1 | ZCCHV_MOUSE | 107 | Mus musculus | 1 | 1 | 1 | 0 | 0 | 0 |
| 21 | Structural maintenance of chromosomes flexible hinge domain-containing protein 1 OS=Mus musculus GN=Smchd1 PE=1 SV=2 | SMHD1_MOUSE | 226 | Mus musculus | 1 | 1 | 1 | 0 | 0 | 0 |
| 22 | Cleavage stimulation factor subunit 2 OS=Mus musculus GN=Cstf2 PE=1 SV=2 | CSTF2_MOUSE | 61 | Mus musculus | 1 | 1 | 1 | 0 | 0 | 0 |
| 23 | Protein SCAF8 OS=Mus musculus GN=Scaf8 PE=1 SV=1 | SCAF8_MOUSE | 140 | Mus musculus | 1 | 1 | 1 | 0 | 0 | 0 |
| 24 | Phenylalanine--tRNA ligase alpha subunit OS=Mus musculus GN=Farsa PE=2 SV=1 | SYFA_MOUSE | 58 | Mus musculus | 1 | 1 | 1 | 0 | 0 | 0 |
| Normal sequence-specific binding proteins | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| No. | Identified Proteins (17/275) | Accession Number | Molecular Weight (KDa) | Taxonomy | In/del 001 | In/del 002 | In/del 003 | Normal 001 | Normal 002 | Normal 003 |
| 1 | Elongation factor 1-gamma OS=Mus musculus GN=Eef1g PE=1 SV=3 | EF1G_MOUSE | 50 | Mus musculus | 0 | 0 | 0 | 20 | 18 | 17 |
| 2 | Heterogeneous nuclear ribonucleoprotein K OS=Mus musculus GN=Hnrnpk PE=1 SV=1 | HNRPK_MOUSE | 51 | Mus musculus | 0 | 0 | 0 | 16 | 14 | 15 |
| 3 | Valine–tRNA ligase OS=Mus musculus GN=Vars PE=2 SV=1 | SYVC_MOUSE | 140 | Mus musculus | 0 | 0 | 0 | 24 | 15 | 21 |
| 4 | Elongation factor 1-delta OS=Mus musculus GN=Eef1d PE=1 SV=3 | EF1D_MOUSE | 31 | Mus musculus | 0 | 0 | 0 | 16 | 13 | 13 |
| 5 | Hemoglobin subunit beta-1 OS=Mus musculus GN=Hbb-b1 PE=1 SV=2 | HBB1_MOUSE | 16 | Mus musculus | 0 | 0 | 0 | 8 | 7 | 10 |
| 6 | Elongation factor 1-beta OS=Mus musculus GN=Eef1b PE=1 SV=5 | EF1B_MOUSE | 25 | Mus musculus | 0 | 0 | 0 | 6 | 6 | 5 |
| 7 | Kinectin OS=Mus musculus GN=Ktn1 PE=2 SV=1 | KTN1_MOUSE | 153 | Mus musculus | 0 | 0 | 0 | 3 | 6 | 2 |
| 8 | Poly(rC)-binding protein 2 OS=Mus musculus GN=Pcbp2 PE=1 SV=1 | PCBP2_MOUSE | 38 | Mus musculus | 0 | 0 | 0 | 7 | 5 | 7 |
| 9 | Hemoglobin subunit alpha OS=Mus musculus GN=Hba PE=1 SV=2 | HBA_MOUSE | 15 | Mus musculus | 0 | 0 | 0 | 4 | 4 | 4 |
| 10 | Heterogeneous nuclear ribonucleoprotein L-like OS=Mus musculus GN=Hnrnpll PE=1 SV=3 | HNRLL_MOUSE | 64 | Mus musculus | 0 | 0 | 0 | 2 | 4 | 5 |
| 11 | Myelin expression factor 2 OS=Mus musculus GN=Myef2 PE=1 SV=1 | MYEF2_MOUSE | 63 | Mus musculus | 0 | 0 | 0 | 4 | 1 | 1 |
| 12 | Protein argonaute-2 OS=Mus musculus GN=Ago2 PE=1 SV=3 | AGO2_MOUSE | 97 | Mus musculus | 0 | 0 | 0 | 2 | 1 | 2 |
| 13 | Keratin, type II cytoskeletal 2 epidermal OS=Mus musculus GN=Krt2 PE=1 SV=1 | K22 E_MOUSE | 71 | Mus musculus | 0 | 0 | 0 | 2 | 1 | 1 |
| 14 | YTH domain-containing family protein 2 OS=Mus musculus GN=Ythdf2 PE=2 SV=1 | YTHD2_MOUSE | 62 | unknown | 0 | 0 | 0 | 1 | 1 | 2 |
| 15 | Poly(rC)-binding protein 4 OS=Mus musculus GN=Pcbp4 PE=2 SV=1 | PCBP4_MOUSE | 41 | Mus musculus | 0 | 0 | 0 | 1 | 1 | 1 |
| 16 | Transcriptional activator protein Pur-beta OS=Mus musculus GN=Purb PE=1 SV=3 | PURB_MOUSE | 34 | Mus musculus | 0 | 0 | 0 | 1 | 1 | 1 |
| 17 | Core-binding factor subunit beta OS=Mus musculus GN=Cbfb PE=1 SV=1 | PEBB_MOUSE | 22 | Mus musculus | 0 | 0 | 0 | 1 | 1 | 1 |
| Normal and in/del sequence common binding proteins | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| No. | Identified Proteins (275) | Accession Number | Molecular Weight (kDa) | Taxonomy | In/del 001 | In/del 002 | In/del 003 | Normal 001 | Normal 002 | Normal 003 |
| 1 | Heterogeneous nuclear ribonucleoprotein A1 OS=Mus musculus GN=Hnrnpa1 PE=1 SV=2 | ROA1_MOUSE | 34 | Mus musculus | 19 | 16 | 16 | 17 | 14 | 17 |
| 2 | Elongation factor 1-alpha 1 OS=Mus musculus GN=Eef1a1 PE=1 SV=3 | EF1A1_MOUSE | 50 | Mus musculus | 11 | 5 | 7 | 15 | 14 | 14 |
| 3 | Heterogeneous nuclear ribonucleoproteins A2/B1 OS=Mus musculus GN=Hnrnpa2b1 PE=1 SV=2 | ROA2_MOUSE | 37 | Mus musculus | 12 | 12 | 12 | 10 | 11 | 10 |
| 4 | Nucleolin OS=Mus musculus GN=Ncl PE=1 SV=2 | NUCL_MOUSE | 77 | Mus musculus | 18 | 20 | 19 | 6 | 5 | 3 |
| 5 | Cytoskeleton-associated protein 5 OS=Mus musculus GN=Ckap5 PE=2 SV=1 | CKAP5_MOUSE | 226 | Mus musculus | 15 | 13 | 16 | 8 | 6 | 13 |
| 6 | Non-POU domain-containing octamer-binding protein OS=Mus musculus GN=Nono PE=1 SV=3 | NONO_MOUSE | 55 | Mus musculus | 10 | 12 | 14 | 8 | 8 | 9 |
| 7 | RNA-binding protein FUS OS=Mus musculus GN=Fus PE=2 SV=1 | FUS_MOUSE | 53 | Mus musculus | 8 | 7 | 8 | 6 | 8 | 7 |
| 8 | Heterogeneous nuclear ribonucleoprotein A3 OS=Mus musculus GN=Hnrnpa3 PE=1 SV=1 | ROA3_MOUSE | 40 | Mus musculus | 10 | 10 | 10 | 7 | 8 | 8 |
| 9 | Septin-11 OS=Mus musculus GN=Sept11 PE=1 SV=4 | SEP11_MOUSE | 50 | Mus musculus | 10 | 11 | 12 | 10 | 10 | 8 |
| 10 | Pyruvate kinase PKM OS=Mus musculus GN=Pkm PE=1 SV=4 | KPYM_MOUSE | 58 | Mus musculus | 8 | 6 | 6 | 17 | 19 | 16 |
| 11 | Splicing factor, proline- and glutamine-rich OS=Mus musculus GN=Sfpq PE=1 SV=1 | SFPQ_MOUSE | 75 | Mus musculus | 10 | 12 | 12 | 6 | 5 | 5 |
| 12 | Heterogeneous nuclear ribonucleoprotein A/B OS=Mus musculus GN=Hnrnpab PE=1 SV=1 | ROAA_MOUSE | 31 | Mus musculus | 7 | 9 | 8 | 9 | 8 | 8 |
| 13 | Septin-7 OS=Mus musculus GN=Sept7 PE=1 SV=1 | SEPT7_MOUSE | 51 | Mus musculus | 11 | 13 | 11 | 10 | 9 | 11 |
| 14 | Polypyrimidine tract-binding protein 1 OS=Mus musculus GN=Ptbp1 PE=1 SV=2 | PTBP1_MOUSE | 56 | Mus musculus | 3 | 4 | 5 | 10 | 9 | 11 |
| 15 | Probable ATP-dependent RNA helicase DDX5 OS=Mus musculus GN=Ddx5 PE=1 SV=2 | DDX5_MOUSE | 69 | Mus musculus | 12 | 11 | 13 | 4 | 4 | 6 |
| 16 | Heterogeneous nuclear ribonucleoprotein A0 OS=Mus musculus GN=Hnrnpa0 PE=1 SV=1 | ROA0_MOUSE | 31 | Mus musculus | 7 | 9 | 8 | 8 | 7 | 7 |
| 17 | Septin-2 OS=Mus musculus GN=Sept2 PE=1 SV=2 | SEPT2_MOUSE | 42 | Mus musculus | 8 | 10 | 10 | 5 | 7 | 6 |
| 18 | Zinc finger X-linked protein ZXDB OS=Mus musculus GN=Zxdb PE=2 SV=1 | ZXDB_MOUSE | 90 | unknown | 5 | 4 | 3 | 2 | 1 | 2 |
| 19 | YTH domain-containing family protein 3 OS=Mus musculus GN=Ythdf3 PE=1 SV=2 | YTHD3_MOUSE | 64 | Mus musculus | 8 | 7 | 7 | 8 | 9 | 9 |
| 20 | ATP-dependent RNA helicase DDX1 OS=Mus musculus GN=Ddx1 PE=1 SV=1 | DDX1_MOUSE | 83 | Mus musculus | 3 | 4 | 5 | 11 | 7 | 10 |
| 21 | Heterogeneous nuclear ribonucleoprotein Q OS=Mus musculus GN=Syncrip PE=1 SV=2 | HNRPQ_MOUSE | 70 | Mus musculus | 10 | 10 | 11 | 1 | 1 | 2 |
| 22 | RNA-binding protein EWS OS=Mus musculus GN=Ewsr1 PE=1 SV=2 | EWS_MOUSE | 68 | Mus musculus | 5 | 4 | 4 | 6 | 5 | 4 |
| 23 | Septin-9 OS=Mus musculus GN=Sept9 PE=1 SV=1 | SEPT9_MOUSE | 66 | Mus musculus | 5 | 5 | 6 | 6 | 6 | 6 |
| 24 | KH domain-containing, RNA-binding, signal transduction-associated protein 1 OS=Mus musculus GN=Khdrbs1 PE=1 SV=2 | KHDR1_MOUSE | 48 | Mus musculus | 7 | 6 | 8 | 2 | 2 | 2 |
| 25 | Splicing factor 3B subunit 3 OS=Mus musculus GN=Sf3b3 PE=2 SV=1 | SF3B3_MOUSE | 136 | Mus musculus | 11 | 11 | 15 | 2 | 1 | 1 |
| 26 | Heterogeneous nuclear ribonucleoprotein D0 OS=Mus musculus GN=Hnrnpd PE=1 SV=2 | HNRPD_MOUSE | 38 | Mus musculus | 4 | 7 | 6 | 5 | 5 | 6 |
| 27 | Heterogeneous nuclear ribonucleoprotein M OS=Mus musculus GN=Hnrnpm PE=1 SV=3 | HNRPM_MOUSE | 78 | Mus musculus | 6 | 4 | 4 | 6 | 7 | 7 |
| 28 | Keratin, type I cytoskeletal 10 OS=Mus musculus GN=Krt10 PE=1 SV=3 | K1C10_MOUSE | 58 | Mus musculus | 5 | 2 | 3 | 6 | 6 | 8 |
| 29 | Poly(rC)-binding protein 1 OS=Mus musculus GN=Pcbp1 PE=1 SV=1 | PCBP1_MOUSE | 37 | Mus musculus | 4 | 2 | 3 | 8 | 10 | 12 |
| 30 | ADP/ATP translocase 2 OS=Mus musculus GN=Slc25a5 PE=1 SV=3 | ADT2_MOUSE | 33 | Mus musculus | 7 | 7 | 8 | 2 | 5 | 5 |
| 31 | tRNA-splicing ligase RtcB homolog OS=Mus musculus GN=Rtcb PE=2 SV=1 | RTCB_MOUSE | 55 | Mus musculus | 5 | 2 | 1 | 9 | 6 | 3 |
| 32 | Leucine-rich repeat-containing protein 59 OS=Mus musculus GN=Lrrc59 PE=1 SV=1 | LRC59_MOUSE | 35 | Mus musculus | 9 | 9 | 9 | 2 | 1 | 2 |
| 33 | UPF0568 protein C14orf166 homolog OS=Mus musculus PE=2 SV=1 | CN166_MOUSE | 28 | Mus musculus | 3 | 4 | 4 | 6 | 6 | 5 |
| 34 | Probable 28S rRNA (cytosine-C(5))-methyltransferase OS=Mus musculus GN=Nop2 PE=1 SV=1 | NOP2_MOUSE | 87 | Mus musculus | 7 | 7 | 6 | 5 | 5 | 6 |
| 35 | Splicing factor 3B subunit 1 OS=Mus musculus GN=Sf3b1 PE=1 SV=1 | SF3B1_MOUSE | 146 | Mus musculus | 7 | 3 | 5 | 1 | 2 | 2 |
| 36 | Anionic trypsin-2 OS=Mus musculus GN=Prss2 PE=2 SV=1 | TRY2_MOUSE | 26 | Mus musculus | 1 | 1 | 1 | 1 | 1 | 1 |
| 37 | Keratin, type II cytoskeletal 79 OS=Mus musculus GN=Krt79 PE=2 SV=2 | K2C79_MOUSE | 58 | Mus musculus | 1 | 1 | 1 | 2 | 3 | 2 |
| 38 | Serum albumin OS=Mus musculus GN=Alb PE=1 SV=3 | ALBU_MOUSE | 69 | Mus musculus | 2 | 3 | 2 | 3 | 3 | 4 |
| 39 | Ras GTPase-activating protein-binding protein 2 OS=Mus musculus GN=G3bp2 PE=1 SV=2 | G3BP2_MOUSE | 54 | Mus musculus | 2 | 2 | 3 | 2 | 4 | 3 |
| 40 | Caprin-1 OS=Mus musculus GN=Caprin1 PE=1 SV=2 | CAPR1_MOUSE | 78 | Mus musculus | 4 | 5 | 2 | 2 | 3 | 3 |
| 41 | Histone H1.1 OS=Mus musculus GN=Hist1h1a PE=1 SV=2 | H11_MOUSE | 22 | Mus musculus | 2 | 2 | 2 | 3 | 2 | 3 |
| 42 | Actin, cytoplasmic 1 OS=Mus musculus GN=Actb PE=1 SV=1 | ACTB_MOUSE | 42 | Mus musculus | 1 | 2 | 2 | 4 | 3 | 3 |
| 43 | Keratin, type II cytoskeletal 5 OS=Mus musculus GN=Krt5 PE=1 SV=1 | K2C5_MOUSE | 62 | Mus musculus | 2 | 3 | 2 | 2 | 2 | 2 |
| 44 | 60S ribosomal protein L30 OS=Mus musculus GN=Rpl30 PE=2 SV=2 | RL30_MOUSE | 13 | Mus musculus | 3 | 3 | 5 | 3 | 1 | 2 |
| 45 | DAZ-associated protein 1 OS=Mus musculus GN=Dazap1 PE=2 SV=2 | DAZP1_MOUSE | 43 | Mus musculus | 3 | 3 | 2 | 1 | 1 | 1 |
| 46 | RNA-binding protein 39 OS=Mus musculus GN=Rbm39 PE=1 SV=2 | RBM39_MOUSE | 59 | Mus musculus | 3 | 3 | 3 | 2 | 4 | 4 |
| 47 | Histone H1.2 OS=Mus musculus GN=Hist1h1c PE=1 SV=2 | H12_MOUSE | 21 | Mus musculus | 2 | 2 | 2 | 2 | 2 | 3 |
| 48 | YTH domain-containing family protein 1 OS=Mus musculus GN=Ythdf1 PE=2 SV=1 | YTHD1_MOUSE | 61 | Mus musculus | 3 | 1 | 1 | 3 | 3 | 2 |
| 49 | Putative RNA-binding protein 3 OS=Mus musculus GN=Rbm3 PE=2 SV=1 | RBM3_MOUSE | 17 | Mus musculus | 2 | 3 | 2 | 2 | 3 | 1 |
| 50 | Hyaluronan mediated motility receptor OS=Mus musculus GN=Hmmr PE=1 SV=4 | HMMR_MOUSE | 92 | Mus musculus | 2 | 1 | 2 | 3 | 1 | 1 |
| 51 | Keratin, type II cytoskeletal 8 OS=Mus musculus GN=Krt8 PE=1 SV=4 | K2C8_MOUSE | 55 | Mus musculus | 1 | 1 | 1 | 1 | 1 | 1 |
| 52 | 60S ribosome subunit biogenesis protein NIP7 homolog OS=Mus musculus GN=Nip7 PE=2 SV=1 | NIP7_MOUSE | 20 | Mus musculus | 1 | 3 | 2 | 1 | 1 | 2 |
Protein threshold:99.9%; peptide threshold: 95%.
The proteins of interest showing biological significance are underlined.