Compilation of novel ERNS from Fraction I (derived from RNAs sized 500-110 nts) and Fraction II (derived from RNAs sized 110-50 nts) cDNA libraries.
ERNS: expressed RNA sequences from Fraction I (MBI-) or Fraction II (MBII-);
copies: number of independent cDNA clones identified from each RNA species;
cDNA: length of cDNA, as assessed by sequencing;
RNA: length of RNA as assessed by Northern blot analysis; homology: homology of snmRNAs to genomic or EST sequences within other organisms;
modification: predicted modified nucleotides within rRNAs or snRNAs (numbering according to the human RNA sequence);
antisense element: for C/D box snoRNAs the length of the antisense element is indicated in nucleotides, followed by its location in the 5' domain (5') or 3' domain (3') of the snoRNA;
location / comments: genomic locus and specific features of ERNS (when applicable);
Acc. Nr.: accession number in GenBank.

part of Institute of Experimental Pathology/Molecular Neurobiology website
 
Group I: novel C/D box snoRNAs guiding a rRNA methylation
  ERNS   copies cDNA RNA homo-
logy		 modifi-
cation		 anti-
sense element		 location / comments Acc. Nr.
MBI-43 4 221 240 human Um3787 in 28S 13 nt (5') long C/D box snoRNA; intron of sortin nexin 5 gene AF357317
MBII-55 4 59 65 human Um1288 in 18S 12 nt (5')   AF357318
MBII-82 2 64 72 - Gm3913 in 28S 13 nt (5')   AF357319
MBII-95 1 63 75 human EST Gm509 in 18S 13 nt (3')   AF357320
MBII-99 4 66 95/75 human Gm3868 in 28S 13 nt (5') funtional homolog to yeast snR190 AF357321
MBII-108 1 56 - human Gm683 in 18S 12 nt (3')   AF357322
MBII-135 1 57 72 rat, bovine Um627 in 18S 14 nt (5') functional homolog to yeast snR77 AF357323
MBII-142 1 58 77 human Cm1272 in 18S 12 nt (5')   AF357324
MBII-180 2 89 80 human EST Cm3670 in 28S 10 nt (5') functional homolog to yeast snR76 AF357325
MBII-211 2 72 80 human EST Cm3670 in 28S 10 nt (5') homolog to yeast snR76, isoform to MBII-180 AF357326
MBII-202 1 48 70 human, rat Am2378 and Um428 in 18S 14 nt (3') and 13nt (5') intron of rpL13 gene AF357327
MBII-210 5 59 - human EST Gm4454 in 28S 9 nt (3')   AF357328
MBII-234 1 53 70 - Am512 in 18S 12 nt (3')   AF357329
MBII-239 2 64 - human Um14 in 5.8S 13 nt (5') partial and cytoplasmic 5.8S rRNA methylation, AF357330
MBII-240 1 60 60 human Um4580 in 28S 12 nt (5') intron of rpL37 gene, AF357331
MBII-251 5 59 65 - Gm601 in 18S 11 nt (5')   AF357332
MBII-276 3 64 72 - Gm3713 in 28S 11 nt (5')   AF357333
MBII-296 1 60 67 human Gm4578 in 28S 16 nt (5')   AF357334
MBII-316 1 71 75 - A3836 in 28S? 13 nt (3') A3836 is not a reported methylation site AF357335
MBII-324 1 94 80 - G1630 in 28S? 10nt (5') G1630 is not a reported methylation site AF357336
MBII-333 1 82 75 - Um1670 in 18S 9 nt (3')   AF357337
MBII-336 1 45 70 human Am576 in 18S 13 nt (3')   AF357338
MBII-420 4 56 65 human, rat EST Am2764 in 28S 12 nt (3')   AF357339
MBII-429 1 56 60 rat Gm436 in 18S 9 nt (5') intron of rpS12 gene AF357340
Group II: novel C/D box snoRNAs guiding a snRNA methylation
MBII-19 3 58 75 - Cm40 in U2 14 nt (3')   AF357341
MBII-119 1 62 75 human EST Cm8 in U4 11 nt (5')   AF357342
MBII-166 11 98 105 - Cm60 in U6 13 nt (3')   AF357343
MBII-382 1 61 75 human, rat EST Cm61 and Gm11 in U2 8 nt (5') and 9 nt (5')   AF357344
Group III: novel C/D box snoRNAs with unidentified targets
MBI-46 1 249 280 - n. d. n. d.   AF357345
MBI-52 1 73 110 human n. d. n. d.   AF357346
MBI-106 1 63 120 - n. d. n. d.   AF357347
MBII-4 1 67 100 - n. d. n. d.   AF357348
MBII-115 27 99 105 human EST n. d. n. d.   AF357349
MBII-163 1 84 165 human n. d. n. d.   AF357350
MBII-170 1 96 - - n. d. n. d.   AF357351
MBII-244 1 68 120 - n. d. n. d.   AF357352
MBII-289 1 93 100 human EST n. d. n. d.   AF357353
MBII-295 2 68 82 human n. d. n. d.   AF357354
MBII-343 1 54 75 - n. d. n. d.   AF357355
MBII-361 1 72 - - n. d. n. d.   AF357356
MBII-366 1 56 85 - n. d. n. d.   AF357357
MBII-419 1 28 56 - n. d. n. d.   AF357358
MBII-426 1 30 60 mouse EST n. d. n. d.   AF357359
Group IV: homologs of C/D box snoRNAs previously identified in humans
MBI-34 1 127 n.d. U8   n. d.   AF357360
MBII-407 1 109 120 U11   n. d.   AF357361
MBII-136 6 98 105 U13   n. d.   AF357362
MBII-98 11 91 115 U16   n. d.   AF357363
MBII-376 1 53 60 U37   n. d.   AF357364
MBII-329 1 59 67 U38a   n. d.   AF357365
MBII-292 1 45 56 U42   n. d. intron 3 of rpL23a gene AF357366
MBII-287 1 55 56 U42b   n. d. isoform to MBII-292; intron 1 of rpL23a gene AF357367
MBII-47 2 48 60 U43   n. d. intron 1 of rpL3 gene AF357368
MBII-401 2 61 70 U45a   n. d.   AF357369
MBII-412 1 45 65 U45b   n. d. isoform to MBII-401 AF357370
MBII-96 1 65 65 U47   n. d.   AF357371
MBII-243 6 62 n.d. U49   n. d.   AF357372
MBII-252 3 63 75 U49   n. d. isoform to MBII-243 AF357373
MBII-422 1 61 65 U50   n. d.   AF357374
MBII-297 4 59 65 U52   n. d. located within MHC class III region AF357375
MBII-308 1 58 70 U52   n. d. isoform to MBII-297, same gene locus as MBII-297 AF357376
MBII-35 1 71 n.d. U53   n. d.   AF357377
MBII-434 11 63 74 U57   n. d.   AF357378
MBII-199 1 56 56 U58b   n. d.   AF357379
MBII-342 3 62 65 U61   n. d.   AF357380
MBII-10 13 80 87 U83b   n. d. intron 7 of rpL3 gene AF357381
MBII-28 11 99 110 mgU6-53   n. d.   AF357382

 
Group V: novel H/ACA box snoRNAs guiding a rRNA pseudouridylation
ERNS copies cDNA RNA homology modification location  / comments Acc. Nr.
MBI-1 1 184 190 human Y3727 /28S   AF357383
MBI-3 3 128 150 - Y4391 /28S ; Y4470 / 28S intron 2 of rpL23 gene AF357384
MBI-6 3 121 140 human Y4512 /28S functional equivalent to yeast snR42 AF357385
MBI-12 4 126 140 - Y3813 / 28S; Y681 /18S   AF357386
MBI-13 5 122 130 human Y815 /18S; Y866 /18S extremely strong expression AF357387
MBI-20 1 104 125 rat Y1723 /28S intron 3 of rat rpP2 gene; mRNA, functional equivalent to yeast snR5 AF357388
MBI-26 1 107 120 human Y4633 / 28S; Y3731 / 28S   AF357389
MBI-28 5 120 130 human Y3889 / 28S; Y3928 / 28S intron 3 of mouse rpL27 gene AF357390
MBI-31 4 122 130 human Y4588 / 28S   AF357391
MBI-39 1 124 150 human Y1003 / 18S intron 4 of Tcp 1 gene; same genetic location as MBI-125 AF357392
MBI-42 1 105 130 human Y4956 / 28S intron 4 of mouse rpS12 gene AF357393
MBI-64 3 117 130 - Y822 / 18S.   AF357394
MBI-80 1 101 130 human Y1237 / 18S; Y1625 /18S   AF357395
MBI-89 2 118 130 human Y34, Y863 /18S; Y4259 / 28S   AF357396
MBI-115 1 126 140 - Y1758 / 28S   AF357397
MBI-141 1 129 180/140 human Y1771 / 28S intron 1 of rpL32-3A gene AF357398
MBI-142 1 94 120 human Y4536 / 28S intron 2 of rpS16 gene AF357399
MBI-161 1 112 - human Y218 / 18S; Y3703 / 28S intron 5 of TPT1 gene for translationally controlled tumor protein (TCTP) AF357400
MBI-164 1 62 120 - U144/5.8S?; U2458/28S? not reported pseudouridylation sites AF357401
Group VI: novel H/ACA box snoRNAs guiding a snRNA pseudouridylation
MBI-57 1 118 - human, xenopus Y34, Y44 / U2 snRNA   AF357402
MBI-100 2 124 140 - Y40 / U6 snRNA   AF357403
MBI-114 2 118 140 - Y40 / U6 snRNA isoform to MBI-100 AF357404
MBI-125 1 61 120 - Y91 / U2 snRNA. intron 9 of Tcp-1 gene, AF357405
Group VII: novel H/ACA box snoRNAs with unidentified targets
MBI-11 1 71 - - n. d. intron 6 of Nit1 gene, antisense direction AF357406
MBI-15 1 32 140 human n. d.   AF357407
MBI-51 1 56 200/120 - n. d.   AF357408
MBI-61 9 164 150 human n. d. 7 copies on chromosome 21, 1 copy on chromosome 19: retrogenes AF357409
MBI-79 1 116 145 rat n. d. intron 10 of Cctz-1 mRNA for Tcp-1 protein, zeta subunit (chaperonin) AF357410
MBI-83 1 113 300/120 human n. d.   AF357411
MBI-87 1 113 120 human, rat n. d. intron 8 of human dyskerin (DKC1) gene AF357412
MBI-137 1 112 n.d. human n. d. isoform to MBI-89, has not the same rRNA target AF357413
MBI-147 1 77 200 - n. d.   AF357414
MBI-152 1 164 - - n. d.   AF357415
Group VIII: homologs of H/ACA box snoRNAs previously identified in humans
MBI-55 1 116 134 U23     AF357416
MBI-29 1 117 n.d. U64     AF357417
MBII-351 1 118 147/67 U65     AF357418
MBI-30 3 98 120 U68     AF357419
MBI-134 1 122 n.d. U69     AF357420
MBI-5 3 130 140 U70     AF357421
MBI-136 1 130 n.d. human, rat   mouse full length sequence of E2 snoRNA AF357422

 
Group IX: brain specific H/ACA and C/D box snoRNAs with so far unidentified targets
ERNS copies cDNA RNA class homology modification location  / comments Acc. Nr.
MBI-36 4 119 130 H/ACA box human n. d. intron 2 of serotonin receptor gene 5-HT2C AF357423
MBII-13 1 46 60 C/D box human n. d. chromosome 15, PWS region; PAR-5 RNA AF357424
MBII-48 5 57 60 C/D box - n. d.   AF357425
MBII-49 4 56 65 C/D box - n. d.   AF357426
MBII-52 37 78 80 C/D box human n. d. chromosome 15, PWS region, tandemly repeated genes AF357427
MBII-78 1 50 57 C/D box - n. d.   AF357428
MBII-85 56 91 95 C/D box human n. d. chromosome 15, PWS region, tandemly repeated genes AF357429

 
Group X: novel RNAs located within coding regions of known mRNAs
ERNS copies cDNA RNA homology location  / comments Acc. Nr.
MBI-45 1 90 - - mitochondrial cyt c mRNA AF357430
MBI-50 1 201 - human RPA16 mRNA AF357431
MBI-69 1 210 240 human, rat M-PFK mRNA AF357432
MBI-85 1 98 110 human, rat ATP1B2 mRNA AF357433
MBI-93 1 34 - human, rat GAD 65 mRNA AF357434
MBI-112 1 112 120 human, rat S27 mRNA AF357435
MBI-122 1 311 - human C1/C2 mRNA AF357436
MBII-8 1 56 56 - GARP45 mRNA AF357437
MBII-26 1 96 - human Ilf3 mRNA AF357438
MBII-51 1 53 - rat PTP-NP mRNA AF357439
MBII-193 1 56 2000 bs human snap 25 mRNA but homolgy only from pos. 4-38 to snap AF357440
MBII-198 1 39 2000 - SGP-1 mRNA AF357441
MBII-208 1 17 n.d. human glutamate receptor channel mRNA AF357442
MBII-228 1 74 - human Pam mRNA (protein associated with Myc) AF357443
MBII-267 1 86 60 human Eph receptor A4 (Epha4), mRNA, snmRNA corresponds to signal peptide sequence AF357444
MBII-339 1 90 - human, rat thrombomodulin mRNA AF357445
Group XI: novel RNAs located within 5' or 3' UTRs of mRNAs
MBI-129 2 156 - human mRNA DKFZp566B183 3' UTR AF357446
MBI-145 1 130 - human scg mRNA 3' UTR AF357447
MBI-151 1 167 - human cdk mRNA 3' UTR AF357448
MBI-154 1 109 - human, rat cd24 mRNA 3' UTR AF357449
MBI-156 1 98 - human HSPC218 mRNA 5' UTR AF357450
MBI-163 1 25 - human, rat cam III mRNA 5' UTR (calmodulin) AF357451
MBII-84 1 65 - human UDP-glucuronosyltransferase mRNA 3' UTR AF357452
MBII-283 1 88 - rat Podxl mRNA 3' UTR AF357453
MBII-395 1 83 135 rat RC3 mRNA 3' UTR (calmodulin binding protein) AF357454
MBII-396 1 68 265 /115 rat add2 mRNA 5' UTR AF357455

 
Group XII:  novel RNAs resembling repetitive elements
ERNS copies cDNA RNA homology location  / comments Acc. Nr.
MBI-2 1 306 - human SINE B4 AF357456
MBI-56 1 84 300/140 -. SINE B4 AF357457
MBI-160 1 122 80 human SINE B1; homology to MBI-2 AF357458
MBII-133 1 65 n. d. human SINE B2 AF357459
MBII-373 1 91 n. d. human SINE B2; homology to MBII-133 AF357460

 
Group XIII: novel snmRNAs without known sequence or structural motifs
ERNS copies cDNA RNA abundance homology location  / comments Acc. Nr.
MBI-44 1 97 100/60 +++ - mitochondrial pro/D-loop AF357461
MBI-68 1 117 130 +++ -   AF357462
MBI-82 2 145 160 +++ human   AF357463
MBII-147 1 75 50 +++ -   AF357464
MBII-156 1 103 500/78 +++ human   AF357465
MBII-367 1 70 140 +++ -   AF357466
MBII-386 1 81 75 +++ -   AF357467
MBII-433 1 73 65 +++ -   AF357468
MBI-7 1 153 160 + -   AF357469
MBI-16 1 112 110 + -   AF357470
MBI-22 2 164 160 + -   AF357471
MBI-40 1 67 200/150/60 + -   AF357472
MBI-58 1 278 300 + -   AF357473
MBI-88 1 60 160/70 + -   AF357474
MBI-149 1 70 220 + -   AF357475
MBII-104 1 68 75 + human   AF357476
MBII-106 1 58 93 + -   AF357477
MBII-157 1 59 95 + -   AF357478
MBII-201 1 66 150 + human   AF357479
MBII-302 1 65 65 + -   AF357480
MBI-4 1 204 - - -   AF357481
MBI-10 1 29 - - -   AF357482
MBI-14 1 30 - - -   AF357483
MBI-21 1 107 - - -   AF357484
MBI-25 1 82 - - -   AF357485
MBI-27 1 151 - - -   AF357486
MBI-32 1 181 -. - human   AF357487
MBI-54 1 105 - - - detectable by RTR-PCR AF357488
MBI-66 1 212 - - -   AF357489
MBI-67 1 228 - - human   AF357490
MBI-72 1 48 - - -   AF357491
MBI-73 1 163 -. - -   AF357492
MBI-75 1 48 - - -   AF357493
MBI-76 1 119 - - -   AF357494
MBI-86 1 76 - - -   AF357495
MBI-102 1 85 - - -   AF357496
MBI-105 1 123 - - -   AF357497
MBI-107 2 56 - - -   AF357498
MBI-109 1 256 - - -   AF357499
MBII-5 1 50 - - -   AF357500
MBII-11 1 51 - - -   AF357501
MBII-37 1 82 - - - detectable by RTR-PCR AF357502
MBII-60 1 58 -. - -   AF357503
MBII-65 1 62 - - - RNA exhibits pseudoknot -structure AF357504
MBII-97 1 65 - - -   AF357505
MBII-109 1 80 - - human detectable by RTR-PCR AF357506
MBII-122 1 64 - - -   AF357507
MBII-123 1 94 -. - -   AF357508
MBII-148 1 55 - - -   AF357509
MBII-158 1 82 - - -   AF357510
MBII-161 1 55 - - -   AF357511
MBII-223 1 73 - - -   AF357512
MBII-247 1 66 - - -   AF357513
MBII-279 1 55 - - -   AF357514
MBII-280 1 93 - - -   AF357515
MBII-293 2 18 - - -   AF357516
MBII-298 1 69 - - -
AF357517