BAC Information

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BAC

Clone NameMSMg01-377C04
Chromosome3 (Build37)
Map Location 88,634,423 - 88,810,137
singlet/doubletdoublet
Overlap gene5830417I10Rik, Msto1, Dap3, Ash1l
Upstream geneSh2d2a, Prcc, Hdgf, Mrpl24, BC023814, Isg20l2, Crabp2, LOC100042242, Nes, Bcan, Hapln2, Gpatc4, Apoa1bp, Ttc24, Iqgap3, Mef2d, AI849053, LOC100042271, LOC100042277, Rhbg, 1700021C14Rik, Cct3, 0610031J06Rik, Tmem79, Smg5, Paqr6, Bglap-rs1, Bglap2, LOC627995, Bglap1, Pmf1, Slc25a44, LOC667989, Sema4a, LOC546802, Lmna, 2700083E18Rik, Rab25, Mapbpip, Ubqln4, LOC545536, Ssr2, Arhgef2, Rxfp4, 2810403A07Rik, Rit1, Syt11
Downstream geneRusc1, Fdps, LOC628070, Pklr, Hcn3, Clk2, Scamp3, 1110013L07Rik, Gba, Mtx1, Thbs3, Muc1, Trim46, Krtcap2, Dpm3, Rag1ap1, Efna1, Efna3, Efna4, Adam15, Dcst1, Dcst2, Zbtb7b, Lenep, Flad1, Cks1b, Shc1, Pygo2, Pbxip1, Pmvk, Kcnn3, LOC668078, Adar, Chrnb2, Ube2q1, LOC668087, She, Il6ra, Atp8b2, LOC668102, Hax1, Ubap2l
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-377C04.T7 (MSMg01no377_c04.b1)MSMg01-377C04.TJ (MSMg01no377_c04.g1)
ACCAG482288AG482289
length794741
length of high quality
(start - end)		170 (51 - 220)481 (82 - 562)
definitionCHROMAT_FILE: MSMg01no377_c04.b1 PHD_FILE: MSMg01no377_c04.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 23:17:13 2005CHROMAT_FILE: MSMg01no377_c04.g1 PHD_FILE: MSMg01no377_c04.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 23:17:13 2005
singlet/doubletdoubletdoublet
BLAST hituniqueplural
Map location.(88,809,971 - 88,810,137)(88,634,423 - 88,634,903)
sequence
NGGACTTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
CGCGGAATTCACTGTATAGCCTATCCTCCTCCCTTAGCTGCCTAGGTCCT
AGAATTAAGTCATATACCTGTGGCTTTTGTTTGTCTATATGTTCATGTGA
ATCCAAACTTACATTTGTGTGGGGAGTGAGGGGAAGGAGGAAGGATGCTA
ATCTTGGGGNTTCTCATGAGATAGCCATCTTATTATTTTTAATTGGAACC
AAACTTATATCTTTTTTAACAACCTTAACTGTGTTGAACCACTACCTCAT
TTCTTTAGCTCCCCCACTATTTTTTTTTCTTGCTATGGATATTCTACAAC
TTGCACTGATTACTTTTTTTATCCCCGCCGCGCATGATCCCTCCGTTCTC
ATCTCCCCCTTCCTCCTGTGACCTCCTTTTTTCGCCTTCTCCCCCAGTCC
CCTCCGTTTCCCCCCATACCCCCACCCCTTTTCGTCCTTTATTCTTCCTT
CTCCCCCTTTTTTCCTTCCTCCTTATTCTTTCGTTCCCCCCTTTTTCCCC
TTGTTCCTTTCCCCCTTTTTCCTTCACCCCCCTTACCTTCCCTCACGTCG
TCCTCCTCTCCCTTTTTCCCCTTCCCCCCCTTCTCTCTCTTTCTCCCTTT
TCCCTCCTTCTACTTCCCCCCCATATTATATTCTTTTTCCTCCTCCTTTC
CCTTCTTTCTTTTTTCTCCCCTTTTCTTTTCCCCCTTTTTTCCCCCCCCG
TTTCCCCCCTTCTTCATTCCCCCCCTTTACATTCCCCCCCTCCC

NCCCCCCGATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXATGACACTTCTACCTCTGC
CTTGAGCCACCATTCCTGGCTTCTTGTTTTTAGGGACCAATCTCATGACC
TTGTCCAGTCAGGTTTTGAACTCAGGAAGTAGCCCTAAACTGGCCTTGAA
CTCAGGAAGTAAAGAAACCACAAGTCTAGGTTTTGTTTCATCTACTCTCA
AAAGGCTCTAGACTTGCAATTAGAGAAAGGACGCTGCTGGAAGAAGAGAG
TTTGAGAAGCAAAAGATTGTGAAGAAAATCCTGGGTTTTTCATGTGATCA
CAAAATGGATTTGGGTCTGGGAAACTCAAGACTTAAAGGATAGAGACAGA
GAGCAAAGCTGAAGAAATACATAAGATCCAGCCTTGGGGTCAAATGGGAA
CAAGGGCTGAGGGGTGTGAAGATCCATTGTGTGGATGCTTGCGCTGAGAT
CTGATGGCTTGTTATGTGGAGAACATTGGGTTCCGTTCAGTTACATATGC
CTCTTACTTGGGAGCGAGAAAGCCATTTTTATTTTATTTTTTTAAAGATG
GCTTGTGTCTCTACCCCAAATTTTGGAACCTAATGTTCTCAACCGGTATT
GGTCTGAAGGAAACACCCCCCCAACGGAATATGAAGGGTTCTAGGCTCCT
CTCTGCCAAAACCCTTTATTTGTATTCTCTCCCCCATTAGN
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no377_c04.b1 MSMg01no377_c04.b1 CHROMAT_FILE:
MSMg01no377_c04.b1 PHD_FILE: MSMg01no377_c04.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 23:17:13 2005
         (170 letters)



>mm_chr3_88809768_88810337
          Length = 570

 Score =  286 bits (148), Expect = 4e-82
 Identities = 162/167 (97%)
 Strand = Plus / Minus

                                                                       
Query: 4   ggaattcactgtatagcctatcctcctcccttagctgcctaggtcctagaattaagtcat 63
           ||||||||||||| ||  ||||||||||||||||||||||| ||||||||||||||||||
Sbjct: 370 ggaattcactgtaaaggttatcctcctcccttagctgcctatgtcctagaattaagtcat 311

                                                                       
Query: 64  atacctgtggcttttgtttgtctatatgttcatgtgaatccaaacttacatttgtgtggg 123
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 310 atacctgtggcttttgtttgtctatatgttcatgtgaatccaaacttacatttgtgtggg 251

                                                          
Query: 124 gagtgaggggaaggaggaaggatgctaatcttggggnttctcatgag 170
           |||||||||||||||||||||||||||||||||||| ||||||||||
Sbjct: 250 gagtgaggggaaggaggaaggatgctaatcttggggtttctcatgag 204


Lambda     K      H
    1.37    0.711     1.31 

Gapped
Lambda     K      H
    1.34    0.600     1.10 


Matrix: blastn matrix:1 -3
Gap Penalties: Existence: 2, Extension: 1
Number of Sequences: 1
Number of Hits to DB: 7
Number of extensions: 1
Number of successful extensions: 1
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1
Number of HSP's successfully gapped: 1
Length of query: 170
Length of database: 570
Length adjustment: 8
Effective length of query: 162
Effective length of database: 562
Effective search space:    91044
Effective search space used:    91044
X1: 7 (13.9 bits)
X2: 517 (999.5 bits)
X3: 517 (999.5 bits)
S1: 7 (14.4 bits)
S2: 7 (14.3 bits)

Query= MSMg01no377_c04.g1 MSMg01no377_c04.g1 CHROMAT_FILE:
MSMg01no377_c04.g1 PHD_FILE: MSMg01no377_c04.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 23:17:13 2005
         (481 letters)



>mm_chr3_88634223_88635103
          Length = 881

 Score =  899 bits (465), Expect = 0.0
 Identities = 477/481 (99%)
 Strand = Plus / Plus

                                                                       
Query: 1   atgacacttctacctctgccttgagccaccattcctggcttcttgtttttagggaccaat 60
           ||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 201 atgacacttctccctctgccttgagccaccattcctggcttcttgtttttagggaccaat 260

                                                                       
Query: 61  ctcatgaccttgtccagtcaggttttgaactcaggaagtagccctaaactggccttgaac 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 261 ctcatgaccttgtccagtcaggttttgaactcaggaagtagccctaaactggccttgaac 320

                                                                       
Query: 121 tcaggaagtaaagaaaccacaagtctaggttttgtttcatctactctcaaaaggctctag 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 321 tcaggaagtaaagaaaccacaagtctaggttttgtttcatctactctcaaaaggctctag 380

                                                                       
Query: 181 acttgcaattagagaaaggacgctgctggaagaagagagtttgagaagcaaaagattgtg 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 381 acttgcaattagagaaaggacgctgctggaagaagagagtttgagaagcaaaagattgtg 440

                                                                       
Query: 241 aagaaaatcctgggtttttcatgtgatcacaaaatggatttgggtctgggaaactcaaga 300
           ||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||
Sbjct: 441 aagaaaatcctgggtttttcatgtgatcacaaaatggatttcggtctgggaaactcaaga 500

                                                                       
Query: 301 cttaaaggatagagacagagagcaaagctgaagaaatacataagatccagccttggggtc 360
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 501 cttaaaggatagagacagagagcaaagctgaagaaatacataagatccagccttggggtc 560

                                                                       
Query: 361 aaatgggaacaagggctgaggggtgtgaagatccattgtgtggatgcttgcgctgagatc 420
           ||||||||||||||||||||||||||||||||||||||| ||||||||| ||||||||||
Sbjct: 561 aaatgggaacaagggctgaggggtgtgaagatccattgtctggatgctttcgctgagatc 620

                                                                       
Query: 421 tgatggcttgttatgtggagaacattgggttccgttcagttacatatgcctcttacttgg 480
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 621 tgatggcttgttatgtggagaacattgggttccgttcagttacatatgcctcttacttgg 680

            
Query: 481 g 481
           |
Sbjct: 681 g 681


Lambda     K      H
    1.37    0.711     1.31 

Gapped
Lambda     K      H
    1.34    0.600     1.10 


Matrix: blastn matrix:1 -3
Gap Penalties: Existence: 2, Extension: 1
Number of Sequences: 1
Number of Hits to DB: 23
Number of extensions: 1
Number of successful extensions: 1
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1
Number of HSP's successfully gapped: 1
Length of query: 481
Length of database: 881
Length adjustment: 10
Effective length of query: 471
Effective length of database: 871
Effective search space:   410241
Effective search space used:   410241
X1: 8 (15.9 bits)
X2: 517 (999.5 bits)
X3: 517 (999.5 bits)
S1: 8 (16.4 bits)
S2: 8 (16.2 bits)


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