Description

Patch release 4 is the fourth patch release for the GRCm38 assembly. Patch release 4 includes all contents that were in patch release 3. This is a minor release of GRCm38 that does not disrupt the coordinate system in the reference sequence GRCm38.

Total patch scaffolds in this patch release: 122
Patch scaffolds of type FIX: 29
Patch scaffolds of type NOVEL: 93

Definitions

Patch release 4 summary table

GRCm38 reference
location
NCBI Entrez
nucleotide record
GRC region
name
sequence
name
patch
type
chr1:60640809-63588262 chr1_JH584320_alt NOD_mouse_Idd5.1 MMCHR1_NOD_IDD5_1alt-scaffold
chr1:60640809-63588262 chr1_KK082441_alt NOD_mouse_Idd5.1 MMCHR1_CHORI29_IDD5_1novel-patch
chr1:65597865-69265254 chr1_JH584321_alt NOD_mouse_Idd5.3 MMCHR1_NOD_IDD5_3alt-scaffold
chr1:78413759-78687489 chr1_GL455993_alt region4 129S6/SVEVTAC_MMCHR1_CTG1alt-scaffold
chr1:130311064-130653047 chr1_JH584322_alt NOD_mouse_Idd5.4 MMCHR1_NOD_IDD5_4alt-scaffold
chr1:133239136-133489442 chr1_GL455991_alt Ren2 129S6/SVEVTAC_MMCHR1_CTG3alt-scaffold
chr1:173701136-174051183 chr1_GL455992v2_alt Ifi_cluster 129S6/SVEVTAC_MMCHR1_CTG4alt-scaffold
chr1:173701136-174051183 chr1_GL456005_alt Ifi_cluster 129X1/SVJ_MMCHR1_CTG2alt-scaffold
chr1:173701136-174051183 chr1_JH584315_alt Ifi_cluster 129X1/SVJ_MMCHR1_CTG1alt-scaffold
chr10:10861646-10927384 chr10_GL456015_alt Grm1 UNKNOWN_MMCHR10_CTG3alt-scaffold
chr10:58205866-58311233 chr10_KQ030491_fix region81 MG4264_PATCHfix-patch
chr11:48799134-49141362 chr11_JH584316_alt region60 CAST/EI_MMCHR11_CTG1alt-scaffold
chr11:58115562-58302084 chr11_JH584317_alt region61 CAST/EI_MMCHR11_CTG3alt-scaffold
chr11:58613181-58787285 chr11_GL455998_alt olfactory_region_1 129S6/SVEVTAC_MMCHR11_CTG1alt-scaffold
chr11:69895472-71298870 chr11_JH584327_alt NOD_mouse_Idd4.1 MMCHR11_NOD_IDD4_1alt-scaffold
chr11:72908911-74370562 chr11_GL456060v2_alt NOD_mouse_Idd4.2 MMCHR11_NOD_IDD4_2alt-scaffold
chr11:86869779-89954755 chr11_JH584265_alt NOD_mouse_Idd4.2Q MMCHR11_CHORI29_IDD4_2Qalt-scaffold
chr11:86869779-89954755 chr11_KB469739_fix NOD_mouse_Idd4.2Q MG3829_PATCHfix-patch
chr11:104203258-104362532 chr11_GL456016_alt Mapt 129X1/SVJ_MMCHR11_CTG3alt-scaffold
chr12:103722705-103922810 chr12_GL456074_alt Serpin_region_1 129S1/SVIMJ_MMCHR12_CTG3alt-scaffold
chr12:105147714-105196166 chr12_GL456349_alt Tcl1_region_1 RIII_MMCHR12_CTG1alt-scaffold
chr12:109373903-109689534 chr12_KB469740_fix Meg3 MG4180_PATCHfix-patch
chr12:113067904-114458697 chr12_GL456017v2_alt Igh 129S1/SVIMJ_MMCHR12_CTG1alt-scaffold
chr12:113067904-114458697 chr12_GL456068_alt Igh BALB/C_MMCHR12_CTG1alt-scaffold
chr12:113067904-114458697 chr12_GL456078_alt Igh 129S7/SVEVBRD-HPRT-B-M2_MMCHR12_CTG2alt-scaffold
chr13:100075065-100330017 chr13_GL455990_alt Naip2_Naip5 A/J_MMCHR13_CTG1alt-scaffold
chr13:100075065-100330017 chr13_JH584305_alt Naip2_Naip5 129S1/SVIMJ_MMCHR13_CTG1alt-scaffold
chr13:106801073-106932896 chr13_GL455999v2_alt Ipo11 129S6/SVEVTAC_MMCHR13_CTG1alt-scaffold
chr14:51863012-51973562 chr14_GL456020_alt region17 129X1/SVJ_MMCHR14_CTG1alt-scaffold
chr14:52352473-54229076 chr14_GL456019_alt Tcra_Tcrd 129S1/SVIMJ_MMCHR14_CTG3alt-scaffold
chr15:3050001-3186530 chr15_KQ030492_fix region82 MG4259_PATCHfix-patch
chr15:38882451-39142852 chr15_KQ030493_fix Baalc MG4261_PATCHfix-patch
chr15:79892564-79986558 chr15_JH584270_alt region65 129S7/SVEVBRD-HPRT-B-M2_MMCHR15_CTG1alt-scaffold
chr15:80502872-80672368 chr15_GL456000_alt region19 129S6/SVEVTAC_MMCHR15_CTG1alt-scaffold
chr16:17742495-19065968 chr16_GL456028v2_alt DiGeorge 129X1/SVJ_MMCHR16_CTG1alt-scaffold
chr16:17742495-19065968 chr16_JH584306_alt DiGeorge 129S1/SVIMJ_MMCHR16_CTG1alt-scaffold
chr16:17742495-19065968 chr16_JH584307_alt DiGeorge 129S1/SVIMJ_MMCHR16_CTG2alt-scaffold
chr16:17742495-19065968 chr16_JH584310_alt DiGeorge 129S6/SVEVTAC_MMCHR16_CTG1alt-scaffold
chr16:17742495-19065968 chr16_JH584311_alt DiGeorge 129S6/SVEVTAC_MMCHR16_CTG2alt-scaffold
chr16:17742495-19065968 chr16_JH584312_alt DiGeorge 129S6/SVEVTAC_MMCHR16_CTG3alt-scaffold
chr16:17742495-19065968 chr16_KB469741_fix DiGeorge MG3833_PATCHfix-patch
chr16:94114272-95747459 chr16_GL456001v2_alt DownSynCrit_region_1 129S6/SVEVTAC_MMCHR16_CTG6alt-scaffold
chr16:95846204-96221063 chr16_JH584313_alt DownSynCrit_region_2 129S6/SVEVTAC_MMCHR16_CTG4alt-scaffold
chr16:97054368-97223607 chr16_JH584314_alt DownSynCrit_region_3 129S6/SVEVTAC_MMCHR16_CTG5alt-scaffold
chr17:12729292-12861171 chr17_GL456069_alt Airn UNKNOWN_MMCHR17_CTG3alt-scaffold
chr17:27313323-29215977 chr17_JH584267_alt NOD_mouse_Idd16.1 MMCHR17_CHORI29_IDD16_1alt-scaffold
chr17:33681276-38548659 chr17_GL456002v2_alt MHC 129S6/SVEVTAC_MMCHR17_CTG2alt-scaffold
chr17:33681276-38548659 chr17_GL456021v2_alt MHC 129S6/SVEVTAC_MMCHR17_CTG1alt-scaffold
chr17:33681276-38548659 chr17_GL456022v2_alt MHC 129X1/SVJ_MMCHR17_CTG2alt-scaffold
chr17:33681276-38548659 chr17_JH584266_alt MHC MMCHR17_CHO_IDD1alt-scaffold
chr17:33681276-38548659 chr17_JH584308_alt MHC 129S1/SVIMJ_MMCHR17_CTG3alt-scaffold
chr17:33681276-38548659 chr17_JH584309_alt MHC 129S1/SVIMJ_MMCHR17_CTG4alt-scaffold
chr17:33681276-38548659 chr17_JH584328_alt MHC MMCHR17_NOD_IDD1alt-scaffold
chr17:33681276-38548659 chr17_JH590470_alt MHC 129S1/SVIMJ_MMCHR17_CTG2alt-scaffold
chr17:54687402-55747384 chr17_KB469742_fix region78 MG4222_MG3908_PATCHfix-patch
chr18:11238883-11458280 chr18_GL456070_alt Impact RIII_MMCHR18_CTG1alt-scaffold
chr18:11238883-11458280 chr18_JH792829_fix Impact MG3835_PATCHfix-patch
chr18:60125920-60496981 chr18_JH584318_alt region70 CAST/EI_MMCHR18_CTG1alt-scaffold
chr19:4013986-4260737 chr19_JH792830_fix Tmem134 MG153_PATCHfix-patch
chr19:5679043-5707799 chr19_GL456079_alt region28 129P2/OLAHSD_MMCHR19_CTG1alt-scaffold
chr19:6183084-6688105 chr19_KQ030494_fix region83 MG4249_PATCHfix-patch
chr19:28892559-28918752 chr19_JH584319_alt Slc1a1 UNKNOWN_MMCHR19_CTG2alt-scaffold
chr2:102983310-103388989 chr2_GL456024v2_alt region29 129S1/SVIMJ_MMCHR2_CTG2alt-scaffold
chr3:15760691-15949398 chr3_KQ030484_fix region80 MG4248_PATCHfix-patch
chr3:36806723-37563603 chr3_GL456006_alt NOD_mouse_Idd3.1 129S1/SVIMJ_MMCHR3_CTG3alt-scaffold
chr3:36806723-37563603 chr3_GL456007_alt NOD_mouse_Idd3.1 129S1/SVIMJ_MMCHR3_CTG2alt-scaffold
chr3:36806723-37563603 chr3_GL456045v2_alt NOD_mouse_Idd3.1 MMCHR3_NODMRKTAC_CTG1alt-scaffold
chr3:36806723-37563603 chr3_GL456048_alt NOD_mouse_Idd3.1 MMCHR3_NOD_IDD3_1alt-scaffold
chr3:47447005-47679964 chr3_GL456049v2_alt region31 MMCHR3_NODMRKTAC_CTG2alt-scaffold
chr3:93583858-93685263 chr3_GL456008_alt Tdpoz_cluster 129S1/SVIMJ_MMCHR3_CTG4alt-scaffold
chr3:99953865-101307585 chr3_JH584323_alt NOD_mouse_Idd10.1 MMCHR3_NOD_IDD10_1alt-scaffold
chr3:103590378-104055839 chr3_GL456044v2_alt NOD_mouse_Idd18.2 MMCHR3_NOD_IDD18_2alt-scaffold
chr3:109116720-109807685 chr3_GL456042v2_alt NOD_mouse_Idd18.1 MMCHR3_NOD_IDD18_1alt-scaffold
chr4:43762692-43857014 chr4_GL456010_alt olfactory_region_2 129X1/SVJ_MMCHR4_CTG2alt-scaffold
chr4:59870283-60154907 chr4_JH584269_alt Mup_region_3 129S7/SVEVBRD-HPRT-B-M2_MMCHR4_CTG6alt-scaffold
chr4:60250666-61586638 chr4_GL456077_alt Mup_region_4 129S7/SVEVBRD-HPRT-B-M2_MMCHR4_CTG4alt-scaffold
chr4:60250666-61586638 chr4_JH584268_alt Mup_region_4 129S7/SVEVBRD-HPRT-B-M2_MMCHR4_CTG5alt-scaffold
chr4:60250666-61586638 chr4_KQ030485_fix Mup_region_4 MG3561_PATCHfix-patch
chr4:60250666-61586638 chr4_KQ030486_fix Mup_region_4 MG3562_PATCHfix-patch
chr4:61778759-62041201 chr4_GL456075_alt Mup_region_1 129S7/SVEVBRD-HPRT-B-M2_MMCHR4_CTG2alt-scaffold
chr4:62045255-62237529 chr4_GL456076_alt Mup_region_2 129S7/SVEVBRD-HPRT-B-M2_MMCHR4_CTG3alt-scaffold
chr4:67057602-67195172 chr4_GL456064_alt region40 UNKNOWN_MMCHR4_CTG1alt-scaffold
chr4:122217500-122473817 chr4_KQ030487_fix region79 MG3609_PATCHfix-patch
chr4:128397119-131686709 chr4_JH584324_alt NOD_mouse_Idd9.1 MMCHR4_NOD_IDD9_1alt-scaffold
chr4:128397119-131686709 chr4_KQ030488_fix NOD_mouse_Idd9.1 MG4265_PATCHfix-patch
chr4:128397119-131686709 chr4_KQ030489_fix NOD_mouse_Idd9.1 MG4266_PATCHfix-patch
chr4:135021547-135237421 chr4_JH584325_alt NOD_mouse_Idd9.1M MMCHR4_NOD_IDD9_1Malt-scaffold
chr4:140721097-140961448 chr4_GL456009_alt Padi_cluster UNKNOWN_MMCHR4_CTG7alt-scaffold
chr4:143214657-143582942 chr4_JH792826_fix region71 MG4136_PATCHfix-patch
chr4:144179444-144348902 chr4_GL455994_alt Prame_region_1 129S6/SVEVTAC_MMCHR4_CTG1alt-scaffold
chr4:146068508-151320022 chr4_GL456053v2_alt NOD_mouse_Idd9.2_Idd9.3 MMCHR4_NOD_IDD9_2alt-scaffold
chr4:146068508-151320022 chr4_JH584326_alt NOD_mouse_Idd9.2_Idd9.3 MMCHR4_NOD_IDD9_3alt-scaffold
chr5:15457667-15635395 chr5_JH792827_fix region75 MG4212_PATCHfix-patch
chr5:90653128-90826761 chr5_GL456011_alt region44 129S1/SVIMJ_MMCHR5_CTG5alt-scaffold
chr5:150872255-151123781 chr5_GL455995_alt region45 129S6/SVEVTAC_MMCHR5_CTG1alt-scaffold
chr6:50779502-50919227 chr6_GL456025_alt region46 129S1/SVIMJ_MMCHR6_CTG1alt-scaffold
chr6:72296717-72451483 chr6_KK082442_fix Sftpb MG184_PATCHfix-patch
chr6:82734575-83039841 chr6_GL456012v2_alt region47 129X1/SVJ_MMCHR6_CTG1alt-scaffold
chr6:89851149-90290463 chr6_GL456065_alt vomeronasal_region_1 129X1/SVJ_MMCHR6_CTG3alt-scaffold
chr6:120377222-121015201 chr6_GL456026v2_alt region49 129S1/SVIMJ_MMCHR6_CTG5alt-scaffold
chr6:129636567-130656471 chr6_JH584264_alt NOD_mouse_Idd6.3 MMCHR6_CHORI29_IDD6_3alt-scaffold
chr6:143536594-149568188 chr6_GL456054v2_alt NOD_mouse_Idd6.1+2 MMCHR6_CHORI29_IDD6_1+2alt-scaffold
chr7:3000001-3475222 chr7_JH792828_fix region72 MG4151_PATCHfix-patch
chr7:27743215-27826849 chr7_GL456014_alt region51 129S1/SVIMJ_MMCHR7_CTG1alt-scaffold
chr7:103811478-103860690 chr7_GL455989_alt Hbb_cluster BALB/C_MMCHR7_CTG1alt-scaffold
chr7:106888710-106927250 chr7_GL456013_alt olfactory_region_3 129S2/SVPAS_MMCHR7_CTG1alt-scaffold
chr8:41292834-41482533 chr8_GL455996_alt region54 129S6/SVEVTAC_MMCHR8_CTG1alt-scaffold
chr8:73065642-73319050 chr8_GL455997_alt Large 129S6/SVEVTAC_MMCHR8_CTG2alt-scaffold
chr9:108784955-108953239 chr9_KQ030490_fix Slc26a6 MG117_PATCHfix-patch
chr9:124268539-124479149 chr9_KB469738v3_fix Nlrp4g MG132_PATCHfix-patch
chrX:29000987-29562451 chrX_KQ030496_fix region85 MG4254_PATCHfix-patch
chrX:29000987-29562451 chrX_KQ030497_fix region85 MG4255_PATCHfix-patch
chrX:37804742-37986547 chrX_JH792831_fix region77 MG4214_PATCHfix-patch
chrX:42891057-43298842 chrX_GL456003v2_alt Odz1 129S6/SVEVTAC_MMCHRX_CTG2alt-scaffold
chrX:60271962-60763715 chrX_KQ030495_fix region84 MG3231_PATCHfix-patch
chrX:72166181-72363206 chrX_GL456032_alt region57 129S1/SVIMJ_MMCHRX_CTG3alt-scaffold
chrX:73003651-73121964 chrX_GL456004_alt Xlr_region_1 129S6/SVEVTAC_MMCHRX_CTG6alt-scaffold
chrX:73185425-73263090 chrX_GL456033v2_alt Xlr_region_2 129S1/SVIMJ_MMCHRX_CTG7alt-scaffold
chrX:103589284-103841870 chrX_GL456031_alt Xic 129S1/SVIMJ_MMCHRX_CTG10alt-scaffold
chrY:45842743-46337667 chrY_JH792832_fix region73 MG4209_PATCHfix-patch
chrY:49216909-49556418 chrY_JH792834_fix region76 MG4213_PATCHfix-patch
chrY:66019703-66188541 chrY_JH792833_fix region74 MG4211_PATCHfix-patch

References

Data obtained from the Genome Reference Consortium:   FTP.