ENSG00000288637:+:4:153322647:153394336

1. Sequences

id gene transcript strand chrom startGR endGR length seq type
ENSG00000288637:+:4:153322647:153394336 ENSG00000288637 ENST00000674680 + 4 153322648 153394336 2351 ACAAAAAUUGGAUCAGGAAAGCUGAUGGGACCCAAAGGAGUUUCUGUGGACCGCAAUGGGCACAUUAUUGUUGUGGACAACAAGGCGUGCUGCGUGUUUAUCUUCCAGCCAAACGGGAAAAUAGUCACCAGGUUUGGUAGCCGAGGAAAUGGGGACAGGCAGUUUGCAGGUCCCCAUUUUGCAGCUGUAAAUAGCAAUAAUGAGAUUAUUAUUACAGAUUUCCAUAAUCAUUCUGUCAAGGUGUUUAAUCAGGAAGGAGAAUUCAUGUUGAAGUUUGGCUCAAAUGGAGAAGGAAAUGGGCAGUUUAAUGCUCCAACAGGUGUAGCAGUGGAUUCAAAUGGAAACAUCAUUGUGGCCGACUGGGGAAACAGCAGGAUCCAGCUCCUCCUGCCAGGCACGGUGGCUCACGCCUGUAAUCCUAGCACUUUAGGAGGCCAAGGCGGAUGGGUCGCCUGAGACUGGGAGAUCGAGACCAGCCUGGCCAACAUGGUGGCGGUGAUUCCCAGGUCUGGUUGAUCAAGACUGCAAUGCACAACAGGAACCUCAGAGAACUGUCACAGCAGCUCUCAGUGACACUUAGGAUACAGAUGCAGCUUAAGUGACCCUUUUUUAUAUCCAUUUAGCACUCAUUUUUCCCAAAAGAAGACCUGUUUGGGUCAAUUUGUUACUGUCCCAGGGCAGGCUUUUGCACUGUGUCGCUUUAGAGGCAGGGGCGGAGGAAAACUUGGGACUGUAACAUCAGUACUGCACAAAGCCCUCUUCCGUAUACAGCAUAAGCACUAUUCUAUAAAAUCCCCAGCAAGCCUUUGUUUCCUUGCAGUCAGCUCCUUUUCUGCUGAUUCUGCCCAUUGCUCCCUUGCAACGUAUUUUCAUGCUUUCUCUAAUGAUUCUGCCUUUCUUUACUUACAACUGCCUUGGUAAAUUUUUCUGCCACAGCGCCACUGGCCUCAGAUAGUCACCACUCACCUGCAACAAGCCUGAGAGCCAAUUAAGACAAGGCUUUCCCCAAGUAGCACAAAUGUAUAUACCACUACUGUAGUUACUUAAUGUACUCAUUUAUCAUUUUAAAAUUACCUUAUGUACCAUCAGUUACAUGGUAUAACUCUUACAGGAAAAACCAAAUUAAUGGAACUCUGCAAUUCAAUGUACCCCUUCCUCUGCCUCCAGCAGAAGCAACAGGGGACAUAAAUUCCAACUUUAGAUGCUACUCUUAUAGCAUCUACAAGACUUACUACACUGUGUGUGUGUGUGUGUGUGUGUGUGCGUGCGUGUGUGUGUGUUACAGAGUCUCACUCUGUCGCCCAGGCUGGAGUGCAGUGGCGGGGUCUUGGCUCACUGCAACCUCUGCCUCCUGGGUCCAAGCGAUUCUCCUGCCUCAGCCUCCCGAGUAGCUGGGAUUGUACAGGCGUCCGCCACCACGCCUGGCUAAUUUUUGUAUUUUUAUUAGAGAUGGGAUUUCACCAUGUUGGCCAGGCUGGUCUCAAACUCCCUACCUCAAGUGAUUUGCCCGCCUCGGCCUCCCAAAUUGCUGGGAUUACAGGUGUGAGCCACAGCGCCCAACCGUACUUCUUACACCUAAAAAUGGUUCAAAACACCAUAGAAUAAUUUUCAAAAUAAUUGAAUUCUGAGUUAAAAUUUUUCAGCACUUUCAGGGGCCUGAGCUUUUGCUAUGAAUCUGGAUCUAUUCUCAAGCCAUGAAGUAGCGUAUUUUUGACCAUGUUGAUUUGAAAUUCAUUCCGUUGUUUCCUUCUUUUUUAAAACCUAAGGGAAAAACAAACAGACAUACACAGGAUUUGAAAAGCUGGAAAGCAGUGGGUAGCGGCUCGGGAGAAGAUGAGGGGUCAGAUUAGAAGACGAGAAAGGAAUCCAGUCCGCCCCAGACAGGACAAGUCCGGAAGGAUGGAGGCAGCGUUUCCUUCCUCAACAGCCUAAACGCCUCUAUUUUUUACAUCCAAACUUAGGCCAUAUUUCUGCGGCGCCAAGAAAACGCAGUAAAAGCAAAGUCAAAGAAAAAAGGACUGAGUGCAGAAGAAAAGAGAACUCGCAUGAUGGAAAUAUUUUCUGAAACAAAAGAUGUAUUUCAAUUAAAAGACUUGGAGAAGAUUGCUCCCAAAGAGAAAGGCAUUACUGCUAUGUCAGUAAAAGAAGUCCUUCAAAGCUUAGUUGAUGAUGGUAUGGUUGACUGUGAGAGGAUCGGAACUUCUAAUUAUUAUUGGGCUUUUCCAAGUAAAGCUCUUCAUGCAAGGAAACAUAAGUUGGAGGUUCUGGAAUCUCAGUUGUCUGAGGGAAGUCAAAAGCAUGCAAGCCUACAGAAAAGCAUUGAGAAAGCUAAAAUUGGCCGAUGUGAAACGACAAAAAUUGGAUCAGGAAAGCUGAUGGGACCCAAAGGAGUUUCUGUGGA circ
ENSG00000288637:+:4:153322647:153394336 ENSG00000288637 ENST00000674680 + 4 153322648 153394336 22 GAUGUGAAACGACAAAAAUUGG bsj
ENSG00000288637:+:4:153322647:153394336 ENSG00000288637 ENST00000674680 + 4 153322448 153322657 210 UAUAUAGAUAUCAGCAGCAGAUAAUGGAUGUGACAAAGCCAGUUUUCCAAGACAGAAGUUCAUUGUGAUAUAUGAGUAGCUGUGUACCCGUUUGAACCUUCAGGUAAAUGUUGACCAAAACAGUGUUUAUCUUCAUGUUCUGUAGUGGUUUAAACUUUGACUCUAUACUGUACUUCUAUUUCUGUACUUGUUUCAAACAGACAAAAAUUG ie_up
ENSG00000288637:+:4:153322647:153394336 ENSG00000288637 ENST00000674680 + 4 153394327 153394536 210 AUGUGAAACGGUAAGUUUGUGUCUAUAGAUUAUUUUAAUAAUGGCAAUUCUAAAUAUUAGAGUAAGCGACACAGAGCUUCCUGUGAGGAGGAUGCAUUUCUACCAGAAGAGAAGGGGAUCAUAGCCAAGGAUAGGAACGUUUGACCUGGUAGGAUUCACCAAUUGUGAGUCUAGAUUUUAUUAUUAUUAUAUAUGGCAGCAUAGCAUAGA ie_down
  • Note:
    • id: unique identifier.
    • gene: represents the gene from which the circRNA arises.
    • transcript: transcript whose exon coordinates overlap with the detected back-spliced junction coordinate and used in the downstream analysis.
    • strand: is the strand from which the gene is transcribed.
    • chrom: is the chromosome from which the circRNA is derived.
    • startGR: is the 5’ coordinate of the genomic range from which the sequence are extracted.
    • endGR: is the 3’ coordinate of the genomic range from which the sequence are extracted.
    • length: length of the extracted sequences.
    • seq: sequence used in the downstream analysis.
    • type: type of sequences retrieved. If type = “circ” the sequences derive from the internal circRNA sequences. If type = “bsj” the sequences derive from the back spliced junctions (BSJ). If type = “ie_up” the Intron or Exon sequences derive from the up-stream of BSJ up to 210 bp. If type = “ie_down” the Intron or Exon sequences derive from the down-stream of BSJ up to 210 bp.

2. RNA Binding Proteins Analysis

RBP on full sequence

Plot

Spreadsheet

id foreground background foregroundNorm backgroundNorm log2FC motifF motifB
OAS1 1 77 0.0008507018 0.0001130379 2.911847 GCAUAA GCAUAA
CELF5 31 1415 0.0136112293 0.0020520728 2.729644 GUGUGU,GUGUUU,UGUGUG,UGUGUU GUGUGG,GUGUGU,GUGUUG,GUGUUU,UGUGUG,UGUGUU
CELF4 33 1782 0.0144619311 0.0025839306 2.484621 GGUGUG,GGUGUU,GUGUGU,GUGUUU,UGUGUG,UGUGUU GGUGUG,GGUGUU,GUGUGG,GUGUGU,GUGUUG,GUGUUU,UGUGUG,UGUGUU
CSTF2 32 1967 0.0140365802 0.0028520334 2.299129 GUGUGU,GUGUUU,UGUGUG,UGUGUU,UGUUUG GUGUGU,GUGUUG,GUGUUU,GUUUUG,UGUGUG,UGUGUU,UGUUUG,UGUUUU
CELF2 30 1886 0.0131858783 0.0027346479 2.269567 GUGUGU,GUUGUU,UGUGUG,UGUUGU AUGUGU,GUAUGU,GUCUGU,GUGUGU,GUUGUU,UAUGUG,UAUGUU,UGUGUG,UGUUGU,UUGUGU
CELF1 33 2391 0.0144619311 0.0034664959 2.060710 GUGUGU,GUUGUG,UGUCUG,UGUGUG,UGUGUU,UGUUGU,UGUUUG CUGUCU,GUGUGU,GUGUUG,GUUGUG,GUUUGU,UGUCUG,UGUGUG,UGUGUU,UGUUGU,UGUUUG,UUGUGU
RBM24 30 2357 0.0131858783 0.0034172229 1.948097 GUGUGA,GUGUGU,UGAGUG,UGUGUG AGAGUG,AGUGUG,GAGUGA,GAGUGG,GAGUGU,GUGUGA,GUGUGG,GUGUGU,UGAGUG,UGUGUG
TARDBP 33 2654 0.0144619311 0.0038476365 1.910216 GUGUGU,GUUGUG,GUUGUU,UGUGUG,UUUUGC GAAUGA,GAAUGG,GAAUGU,GUGAAU,GUGUGU,GUUGUG,GUUGUU,GUUUUG,UGAAUG,UGUGUG,UUGUGC,UUGUUC,UUUUGC
SUPV3L1 1 199 0.0008507018 0.0002898408 1.553393 CCGCCC CCGCCC
PABPN1 10 1222 0.0046788601 0.0017723764 1.400472 AAAAGA,AGAAGA AAAAGA,AGAAGA
SRP14 6 847 0.0029774564 0.0012289250 1.276684 CCUGUA,CGCCUG,CUGUAG,GCCUGU CCUGUA,CGCCUG,CUGUAG,GCCUGU
RBMY1A1 3 489 0.0017014037 0.0007101099 1.260611 ACAAGA,CAAGAC ACAAGA,CAAGAC
CPEB2 17 2261 0.0076563165 0.0032780993 1.223791 AUUUUU,CAUUUU,CCUUUU,CUUUUU,UUUUUU AUUUUU,CAUUUU,CCUUUU,CUUUUU,UUUUUU
PABPC3 8 1234 0.0038281582 0.0017897669 1.096879 AAAAAC,AAAACA,AAAACC,GAAAAC AAAAAC,AAAACA,AAAACC,GAAAAC
HNRNPCL1 14 2062 0.0063802637 0.0029897078 1.093612 AUUUUU,CUUUUU,UUUUUG,UUUUUU AUUUUU,CUUUUU,UUUUUG,UUUUUU
HNRNPM 6 999 0.0029774564 0.0014492040 1.038820 AAGGAA,GAAGGA AAGGAA,GAAGGA,GGGGGG
HNRNPC 23 3471 0.0102084219 0.0050316361 1.020660 AUUUUU,CUUUUU,GGAUAC,GGAUUC,UUUUUA,UUUUUC,UUUUUG,UUUUUU AUUUUU,CUUUUU,GCAUAC,GGAUAC,GGAUAU,GGAUUC,GGGGGG,GGGUAC,UUUUUA,UUUUUC,UUUUUG,UUUUUU

RBP on BSJ (Exon Only)

Plot

Spreadsheet

id foreground background foregroundNorm backgroundNorm log2FC motifF motifB
FXR1 1 2 0.09090909 0.0001964894 8.853829 ACGACA ACGACA,AUGACA
HNRNPLL 1 9 0.09090909 0.0006549646 7.116864 ACGACA ACAAAC,ACACCA,ACAUAC,ACGACA,CACCAC,CAGACG,CAUACA,GACGAC
HNRNPAB 1 20 0.09090909 0.0013754257 6.046474 GACAAA AAAGAC,AAGACA,ACAAAG,AGACAA,CAAAGA,GACAAA
RBM3 1 20 0.09090909 0.0013754257 6.046474 AAACGA AAAACG,AAAACU,AAGACU,AAUACG,AAUACU,AUACUA,GAAACU,GAGACG,GAGACU,GAUACU
FXR2 1 29 0.09090909 0.0019648939 5.531901 GACAAA AGACAA,AGACAG,AGACGG,GACAAA,GACAAG,GACAGA,GACAGG,GACGAA,GACGGA,GGACAA,GGACAG,GGACGA,UGACAA,UGACAG,UGACGA
SRSF3 1 61 0.09090909 0.0040607807 4.484596 AACGAC AACGAU,ACCACC,ACUACG,AGAGAU,CACAAC,CACAUC,CACCAC,CAGAGA,CAUCAC,CAUCGU,CAUUCA,CCACCA,CCUCGU,CCUCUU,CUACAG,CUCCAA,CUCGUC,CUCUUC,CUUCAA,CUUUAU,GACUUC,GAGAUU,UACAGC,UCAGAG,UCUCCA,UCUUCA,UCUUCC,UGUCAA,UUCGAC,UUCUCC,UUCUUC
SRSF7 1 128 0.09090909 0.0084490438 3.427565 GACAAA AAGGAC,AAGGCG,AAUGAU,ACGAAU,ACUACG,AGAAGA,AGAGAA,AGAGAC,AGAGAG,AGAGAU,AGAGGA,AGAUCA,AGAUCU,AGGAAG,AGGACA,AUAGAC,AUUGAC,AUUGAU,CAGAGA,CGAAUG,CUCUUC,CUGAGA,GAAGAA,GAAGGC,GAAUGA,GACAAA,GACGAC,GAGACU,GAGAGA,GAGAUC,GAGGAA,GAUAGA,GAUUGA,GGAAGG,GGACAA,GGACGA,UAGAGA,UCUUCA,UGAGAG,UGGACA
SRSF10 1 160 0.09090909 0.0105449306 3.107875 GACAAA AAAAGA,AAAGAA,AAAGAC,AAAGAG,AAAGGG,AAGAAA,AAGACA,AAGAGA,AAGAGG,AAGGAA,AAGGGA,AAGGGG,ACAAAG,AGACAA,AGAGAA,AGAGAC,AGAGAG,AGAGGA,AGAGGG,CAAAGA,GAAAGA,GACAAA,GAGAAA,GAGAAC,GAGAAG,GAGACA,GAGACC,GAGACG,GAGAGA,GAGAGC,GAGGAA,GAGGAG,GAGGGA,GAGGGG

RBP on BSJ (Exon and Intron)

Plot

Spreadsheet

id foreground background foregroundNorm backgroundNorm log2FC motifF motifB
CNOT4 1 65 0.004761905 0.0003325272 3.839994 GACAGA GACAGA
RBMS1 4 217 0.011904762 0.0010983474 3.438132 AUAUAG,GAUAUA,UAUAUA AUAUAC,AUAUAG,GAUAUA,UAUAUA
AKAP1 4 221 0.011904762 0.0011185006 3.411901 AUAUAU,UAUAUA AUAUAU,UAUAUA
RBMY1A1 1 95 0.004761905 0.0004836759 3.299426 CAAGAC ACAAGA,CAAGAC
HNRNPAB 6 351 0.016666667 0.0017734784 3.232312 AAGACA,ACAAAG,AGACAA,AUAGCA,GACAAA AAAGAC,AAGACA,ACAAAG,AGACAA,AUAGCA,CAAAGA,GACAAA
IGF2BP1 2 173 0.007142857 0.0008766626 3.026408 ACCCGU,CCCGUU AAGCAC,ACCCGU,AGCACC,CACCCG,CCCGUU,GCACCC
RBMS3 8 562 0.021428571 0.0028365578 2.917322 AUAUAG,AUAUAU,CUAUAG,UAUAGA,UAUAUA AAUAUA,AUAUAG,AUAUAU,CAUAUA,CUAUAG,CUAUAU,UAUAGA,UAUAGC,UAUAUA,UAUAUC
HNRNPA3 3 349 0.009523810 0.0017634019 2.433177 CAAGGA,CCAAGG,GCCAAG AAGGAG,AGGAGC,CAAGGA,CCAAGG,GCCAAG,GGAGCC
PABPN1 1 178 0.004761905 0.0009018541 2.400573 AGAAGA AAAAGA,AGAAGA
G3BP2 4 490 0.011904762 0.0024738009 2.266737 AGGAUA,AGGAUG,AGGAUU,GGAUAG AGGAUA,AGGAUG,AGGAUU,GGAUAA,GGAUAG,GGAUGA,GGAUGG,GGAUUA,GGAUUG
HNRNPA0 1 200 0.004761905 0.0010126965 2.233337 AGAUAU AAUUUA,AGAUAU,AGUAGG
FXR2 6 730 0.016666667 0.0036829907 2.178016 AGACAA,AGACAG,GACAAA,GACAGA,UGACAA AGACAA,AGACAG,AGACGA,AGACGG,GACAAA,GACAAG,GACAGA,GACAGG,GACGAA,GACGAG,GACGGA,GACGGG,GGACAA,GGACAG,GGACGA,GGACGG,UGACAA,UGACAG,UGACGA,UGACGG
SRP14 1 218 0.004761905 0.0011033857 2.109602 CUGUAG CCUGUA,CGCCUG,CUGUAG,GCCUGU
RBM28 2 340 0.007142857 0.0017180572 2.055723 GAGUAG,UGUAGU AGUAGA,AGUAGG,AGUAGU,GAGUAG,GUGUAG,UGUAGA,UGUAGG,UGUAGU
PUM2 5 764 0.014285714 0.0038542926 1.890035 GUAAAU,UAAAUA,UAGAUA,UAUAUA GUAAAU,GUACAU,GUAGAU,GUAUAU,UAAAUA,UACAUA,UACAUC,UAGAUA,UAUAUA,UGUAAA,UGUACA,UGUAGA,UGUAUA
PABPC3 1 310 0.004761905 0.0015669085 1.603618 AAAACA AAAAAC,AAAACA,AAAACC,GAAAAC
ACO1 1 325 0.004761905 0.0016424829 1.535660 CAGUGU CAGUGA,CAGUGC,CAGUGG,CAGUGU
PUM1 11 2172 0.028571429 0.0109482064 1.383879 AAUAUU,AAUGUU,AAUUGU,AGAUAA,CCAGAA,GUAAAU,UAAAUA,UAGAUA,UAUAUA,UUUAAU AAUAUU,AAUGUU,AAUUGU,ACAUAA,AGAAUU,AGAUAA,AUUGUA,CAGAAU,CCAGAA,CUUGUA,GAAUUG,GUAAAU,GUAAUA,GUACAU,GUAGAU,GUAUAU,GUCCAG,UAAAUA,UAAUAU,UAAUGU,UACAUA,UACAUC,UAGAUA,UAUAUA,UGUAAA,UGUAAU,UGUACA,UGUAGA,UGUAUA,UGUCCA,UUAAUG,UUGUAC,UUGUAG,UUUAAU
NONO 1 364 0.004761905 0.0018389762 1.372636 AGGAAC AGAGGA,AGGAAC,GAGAGG,GAGGAA
ENOX1 3 756 0.009523810 0.0038139863 1.320239 AAGACA,AGACAG,CAGACA AAGACA,AAUACA,AGACAG,AGGACA,AGUACA,AUACAG,CAGACA,CAUACA,CGGACA,CGUACA,GGACAG,GUACAG,UAGACA,UAUACA,UGGACA,UGUACA
RC3H1 2 631 0.007142857 0.0031841999 1.165570 UUCUGU CCCUUC,CCUUCU,CUUCUG,UCCCUU,UCUGUG,UUCUGU
ZCRB1 2 666 0.007142857 0.0033605401 1.087808 GGUUUA,GUUUAA AAUUAA,ACUUAA,AUUUAA,GAAUUA,GACUUA,GAUUAA,GAUUUA,GCUUAA,GGAUUA,GGCUUA,GGUUUA,GUUUAA
HNRNPA2B1 8 2033 0.021428571 0.0102478839 1.064210 AAGGGG,AGAUAU,AGGAAC,AUAGCA,CAAGGA,CCAAGA,CCAAGG,GCCAAG AAGAAG,AAGGAA,AAGGAG,AAGGGG,AAUUUA,ACUAGA,AGAAGC,AGACUA,AGAUAU,AGGAAC,AGGAGC,AGGGGC,AGUAGG,AUAGCA,AUAGGG,AUUUAA,CAAGAA,CAAGGA,CAAGGG,CCAAGA,CCAAGG,CGAAGG,CUAGAC,GAAGCC,GAAGGA,GACUAG,GCCAAG,GCGAAG,GGAACC,GGAGCC,GGGGCC,GUAGGG,UAGACA,UAGACU,UAGGGA,UAGGGU,UUAGGG,UUUAUA

Help

  • Note:
    • foreground: number of motifs found in the foreground target sequences (e.g. predicted circRNAs).
    • background: number of motifs found in the background target sequences (e.g. randomly generated circRNAs).
    • foregroundNorm: number of motifs found in the foreground target sequences (+1) divided by the number (or length) of sequences analyzed.
    • backgroundNorm: number of motifs found in background target sequences (+1) divided by the number (or length) of sequences analyzed.
    • log2FC: log2 fold change calculated in this way (foregroundNorm)/(backgroundNorm).
    • motifF: motifs of the corresponding RBP found in the foreground sequences.
    • motifB: motifs of the corresponding RBP found in the background sequences.

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