BAC Information

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BAC

Clone NameMSMg01-476B05
Chromosome4 (Build37)
Map Location 106,918,314 - 107,077,863
singlet/doubletdoublet
Overlap geneLrrc42, 2900042B11Rik, Dio1, Yipf1, LOC652920, Tmem48
Upstream geneUsp24, LOC100039616, Pcsk9, Bsnd, Tmem61, Dhcr24, BC055111, Ttc22, Pars2, Ttc4, Gm1027, BC026682, Acot11, Ssbp3, Mrpl37, 2810410C14Rik, Cdcp2, 2210012G02Rik, Tmem59, LOC546840
Downstream geneGlis1, Dmrtb1, LOC100039889, LOC433743, 4933424M12Rik, 4930430J20Rik, Magoh, 0610037L13Rik, Cpt2, Slc1a7, Podn, Scp2, Echdc2, Zyg11a, Zyg11b, LOC100040252, 2010305A19Rik, LOC545667, Gpx7
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-476B05.T7 (MSMg01no476_b05.b1)MSMg01-476B05.TJ (MSMg01no476_b05.g1)
ACCAG557752AG557753
length773766
length of high quality
(start - end)		405 (74 - 478)486 (76 - 561)
definitionCHROMAT_FILE: MSMg01no476_b05.b1 PHD_FILE: MSMg01no476_b05.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 19:55:04 2005CHROMAT_FILE: MSMg01no476_b05.g1 PHD_FILE: MSMg01no476_b05.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 19:55:04 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(106,918,314 - 106,918,718)(107,077,548 - 107,077,863)
sequence
GGATCTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXC
GCGGAATTCATTAACTTTCCAACCAATTAAATAAAGACTAGTTACGCTTT
TCTTCCTGTTTTATGAGTTTTATATTTTCTGTTATTGCTTTCTCTTTTAT
AGTATACATCTTGTTTGGCCTCTCTTTTTTTTGGGGGGGGGGTTCTCTGT
AGCCCTGGATGTACTGGAACTCACTCTGTAGAGCAGGCTGGCCTCACACT
CAGATCCACCTACCTCTGCCTGAGTACTAGGATTAAAGGCGTGCTGTTGG
CTTCATTTTATAGGTTGTATTTATTATTCATCTGAACGGTAAACTGGTGG
GTTGGGGAATGTGGCTCAGAGAGAACACTATCCTAGTATTATTAGGTCCT
GGATTGGATCTTCAGCATCACACACACAAAAAATGAATTAATGCAAAACT
GCCTTTTAATCATAAAAAAGTTCAGGTGGCACATTATTAAATTAAGTCTA
CAATATTGATTACGAATGATTTTCAAATTGCGTGTTACCAGAAAGGCTCT
TCACCATACAAAATATCGCGTCTTCCACTTCGTTCTGTTTCCCCCTTTGT
TCGTCCCCTCAAACGTTTACGTTCTCAGGTCCCCTCGCCTGCGTATTTTC
TGTGTTTTGCTTTTCTGTTTTTTCTCCCTCCTTCGTTTCCTTTGTTTTGC
TTTTACCATTTTTCCTTCCCTCTCCTTTATCCAATTTCCTTCCTTCCCTT
CCCCACTCGCCTATTGCGATACC

CATTGCXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXTCAGGTTCAGGGACTTCAAAACAAT
AGTATCTACAGAGAAATTAAACCCATTGTCTTTTCTTATTTTAACTGCCT
TATCCCCAAAATTCTGGAAAAAAAACAAAAACAAACCACCATCACTACCA
CCTCCACCACCACCACCACCACCACCACCTCCACCACCACCTCCACCACC
ACCACCACCTCCACCACCACCTCCACCACCACCTCCACCACCACCACCTC
CACCACCACCTCCACCACCACCACCATCACCTCCACCACCACCACCACCT
CCACCACCACCACCTCCACCACCACCACCTCCTCCTCCTCCTCCTCCTCC
TCCACCACCAAAACCCACTGACAGCTAAAAGTTTTGTTCCTCTGGGGGGC
AAAAACTGACCTAAACTCTGTCATCTGGTAGAAAAACCTGACCTGACCTG
ACATAAGTTATTTATAGTCCTCATCTCCTTACCCACACATGCTTAGCTAC
GTCACAGAAGATAAAATATTCATTTTCTTCCTAGGGGACCTACCTCAGAT
ACTGTAAGGAGCATAACAGAGTTTGTCTATGTATAAGTCTAAAGTGGTAC
ACTTAAAATAATCTTTAGGGACTGGCAAGAGAACCAAAGTTTAATTCCCA
GCACCCACACAGAAAGCTAAAAATGTCTGTAAATTCCCCCTACCGGCATT
TTCCCTTATAAAACCG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no476_b05.b1 MSMg01no476_b05.b1 CHROMAT_FILE:
MSMg01no476_b05.b1 PHD_FILE: MSMg01no476_b05.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 19:55:04 2005
         (405 letters)



>mm_chr4_106918114_106918918
          Length = 805

 Score =  775 bits (401), Expect = 0.0
 Identities = 404/405 (99%)
 Strand = Plus / Plus

                                                                       
Query: 1   caattaaataaagactagttacgcttttcttcctgttttatgagttttatattttctgtt 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 201 caattaaataaagactagttacgcttttcttcctgttttatgagttttatattttctgtt 260

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

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

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

                                                                       
Query: 241 gttgtatttattattcatctgaacggtaaactggtgggttggggaatgtggctcagagag 300
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 441 gttgtatttattattcatctgaacggtaaactggtgggttggggaatgtggctcagagag 500

                                                                       
Query: 301 aacactatcctagtattattaggtcctggattggatcttcagcatcacacacacaaaaaa 360
           |||||||||||||||||||||||||||||||||||||||||| |||||||||||||||||
Sbjct: 501 aacactatcctagtattattaggtcctggattggatcttcagtatcacacacacaaaaaa 560

                                                        
Query: 361 tgaattaatgcaaaactgccttttaatcataaaaaagttcaggtg 405
           |||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 561 tgaattaatgcaaaactgccttttaatcataaaaaagttcaggtg 605


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: 20
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: 405
Length of database: 805
Length adjustment: 9
Effective length of query: 396
Effective length of database: 796
Effective search space:   315216
Effective search space used:   315216
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)

Query= MSMg01no476_b05.g1 MSMg01no476_b05.g1 CHROMAT_FILE:
MSMg01no476_b05.g1 PHD_FILE: MSMg01no476_b05.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 19:55:04 2005
         (486 letters)



>mm_chr4_107077542_107078427
          Length = 886

 Score =  499 bits (258), Expect = e-145
 Identities = 297/316 (93%), Gaps = 12/316 (3%)
 Strand = Plus / Minus

                                                                       
Query: 1   tcaggttcagggacttcaaaacaatagtatctacagagaaattaaacccattgtcttttc 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 322 tcaggttcagggacttcaaaacaatagtatctacagagaaattaaacccattgtcttttc 263

                                                                       
Query: 61  ttattttaactgccttatccccaaaattctggaaaaaaaacaaaaacaaaccaccatcac 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 262 ttattttaactgccttatccccaaaattctggaaaaaaaacaaaaacaaaccaccatcac 203

                                                                       
Query: 121 taccacctccaccaccaccaccaccaccaccacctccaccaccacctccaccaccaccac 180
           |||||||||||||||||||||||||||||||||| ||||| ||||||||||| |||||||
Sbjct: 202 taccacctccaccaccaccaccaccaccaccaccaccacctccacctccacctccaccac 143

                                                                       
Query: 181 cacctccaccaccacctccaccaccacctccaccaccaccacc------tccaccaccac 234
           |||||||||||||||||||||||||||||||||||||||||||      |||||||||||
Sbjct: 142 cacctccaccaccacctccaccaccacctccaccaccaccaccaccacctccaccaccac 83

                                                                       
Query: 235 ctccaccaccaccaccatcacctccaccaccaccacc---acctccacc---accaccac 288
           ||||||||||||| ||| |||| ||||||||||||||   ||| |||||   ||||||||
Sbjct: 82  ctccaccaccacctccaccaccaccaccaccaccacctccaccaccacctccaccaccac 23

                           
Query: 289 ctccaccaccaccacc 304
           ||||||||||||||||
Sbjct: 22  ctccaccaccaccacc 7



 Score =  107 bits (55), Expect = 2e-27
 Identities = 61/63 (96%)
 Strand = Plus / Minus

                                                                       
Query: 122 accacctccaccaccaccaccaccaccaccacctccaccaccacctccaccaccaccacc 181
           |||||| |||||||||||||| ||||||||||||||||||||||||||||||||||||||
Sbjct: 66  accaccaccaccaccaccacctccaccaccacctccaccaccacctccaccaccaccacc 7

              
Query: 182 acc 184
           |||
Sbjct: 6   acc 4


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: 268
Number of extensions: 26
Number of successful extensions: 26
Number of sequences better than 10.0: 1
Number of HSP's gapped: 24
Number of HSP's successfully gapped: 2
Length of query: 486
Length of database: 886
Length adjustment: 10
Effective length of query: 476
Effective length of database: 876
Effective search space:   416976
Effective search space used:   416976
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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