BAC Information

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BAC

Clone NameMSMg01-274I07
ChromosomeX (Build37)4 (Build37)
Map Location 34,642,096 - 34,642,3595,289,736 - 5,290,093
singlet/doubletsingletsinglet
Overlap geneUpf3b
Upstream geneIl13ra1, Zcchc12, LOC547166, Lonrf3, EG621901, Pgrmc1, B230333C21Rik, LOC621983, Slc25a43, Slc25a5, C330007P06Rik, Ube2a, Nkrf, Sept6, Ankrd58, Rpl39
Downstream gene2610020O08Rik, Akap14, Ndufa1, Rnf113a1, Gm9, Rhox1, Rhox2, Rhox3, Rhox4a, LOC100039913, Rhox4b, LOC100039948, Rhox4c, EG434760, LOC546295, Rhox4d, LOC100040016, Rhox4e, LOC100040043, LOC621852, Rhox4h, LOC546294, EG621903, EG434766, Rhox4g, EG434758, LOC622301, EG622311, Rhox6, Rhox7, Rhox8, LOC436198, Rhox9, LOC100039620, 4930525M21Rik, 4930430D24Rik, Rhox10, Rhox11, Rhox12, 1700123J19Rik, Zbtb33, 6430550H21Rik
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-274I07.T7 (MSMg01no274_i07.b1)MSMg01-274I07.TJ (MSMg01no274_i07.g1)
ACCAG413221AG413222
length736742
length of high quality
(start - end)		264 (378 - 641)358 (379 - 736)
definitionCHROMAT_FILE: MSMg01no274_i07.b1 PHD_FILE: MSMg01no274_i07.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 21:14:04 2005CHROMAT_FILE: MSMg01no274_i07.g1 PHD_FILE: MSMg01no274_i07.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 21:14:04 2005
singlet/doubletsingletsinglet
BLAST hituniqueunique
Map location.(34,642,096 - 34,642,359)(5,289,736 - 5,290,093)
sequence
ATXXXXXXXXXXXXXXXXXXXXXXXXXXAATCCGCACGAATCCGCGGAAT
TCTGTAACTACTAAAAAGGTTGACAGACTTATTAGCACACCTGATAAATA
CTACAGGAATTATTATCCTCTCATCTCATGGATACTCTGACCACATCCTG
TGAAGGCATGAGGTTACTGTATGTGATCGAATAGAAACGGTTTCAGGGAA
TGTAATGATTGCAGGATCACACAGCTGCCAAATCATACAGGCGGATACAA
GACTTAGGTAGTCAGACTGAAAAGCCATTGGCCAAAATCCTTTTCCTACT
TACCTATTAATTTTTTTTTTTTGGCTTCAATTTCCTCCAGCAATGTCTCT
GGAGTATATTTCATTTCCTCCCTGCCTGTGGCATAACTCTCCAAAAATTT
TCTGTATTCTGGATCTAAATAAACATTTAAGGAACCAGAAAATAGAGACT
TTTAGCAACAAAAAGGAAGTGTTAGCTAGGCTAAATATTTAACTTACAAG
TATGGCATTTCTTCTACTATATGGAAGATTAAAAAACTGAGCACACTGAC
AAGAGGTGGAATACTGCCCCAGGCCTGGGCTTGCAGCTCAGGTGGAGATC
ACTTAGTTGGCCTGGGTGAGGCGTTAGTTTTGAGCCCCCAGAGTCTCATG
AGATAAAAACTAAGGCTTCTACAAATCAAGAGTCACACTTATAGGAGATA
CGGGAATTAGAGAGTCTTTTTTGGTTTTTGCTTTTT

TGACXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXTCTCTTTTACTGAAAACAATTTTCACC
TCGTATGACATGTGTATTCTCCCCATGAGTTGACACATGCATTTTCAAGA
TCGGGAACGCATCTGTTCACCAGTCTGGCCACAGGTCAACATGGACCGAC
TACCCCTAACACTTTGCATATAATTGCAAGGTTTGTACAATTTATTTTTG
ATACGTTAACAACGAGTGAGTGCGTGTGCGAGTGTGCGCGCGGGTGAGTG
CGAGTGAGTGTGAGTGCGTTTGATACATTCCTAAACCACTTTTATTTCTC
CTTCTGACATTATAACTTTTACCGCTCTCATTTTTACAGATCTTTAAGTT
TTGTACAATGTGTTGGTGATTGTATTCAACCCCTGCCCCACTCTCTCCCA
AATCATCATCCCCTTCACTACCCATCAGCAGCCTTCCTAAATAAAAATGA
CAGAGATAATGGGAAAGAAATCAAGAGAAAATGTCATCCACAGAAGCCTT
AAATTTTTTCTGGAATAAATCTAACCAAGGAAGCGAAATCCTTGTCTGAT
GAAAACCTTAAAATGGTTGGTTGTTTTGTTTTTAAGCCATGGACTAATTT
TCTTCATTAAATAGCTATTCCAGGAAAAACAAATGCCCAAGAAACTGATT
GAAGACAGTAACAGATGGAAAGGTCTCCGTGCCCAGAGGCTG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no274_i07.b1 MSMg01no274_i07.b1 CHROMAT_FILE:
MSMg01no274_i07.b1 PHD_FILE: MSMg01no274_i07.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 21:14:04 2005
         (264 letters)



>mm_chrX_34641896_34642559
          Length = 664

 Score =  495 bits (256), Expect = e-144
 Identities = 262/264 (99%)
 Strand = Plus / Plus

                                                                       
Query: 1   gtggcataactctccaaaaattttctgtattctggatctaaataaacatttaaggaacca 60
           ||||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||
Sbjct: 201 gtggcataactctccaaaaattttctgtattctggatctaaataatcatttaaggaacca 260

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

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

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

                                   
Query: 241 gaggcgttagttttgagcccccag 264
           |||| |||||||||||||||||||
Sbjct: 441 gaggtgttagttttgagcccccag 464


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: 11
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: 264
Length of database: 664
Length adjustment: 9
Effective length of query: 255
Effective length of database: 655
Effective search space:   167025
Effective search space used:   167025
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= MSMg01no274_i07.g1 MSMg01no274_i07.g1 CHROMAT_FILE:
MSMg01no274_i07.g1 PHD_FILE: MSMg01no274_i07.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 21:14:04 2005
         (358 letters)



>mm_chr4_5289536_5290293
          Length = 758

 Score =  677 bits (350), Expect = 0.0
 Identities = 356/358 (99%)
 Strand = Plus / Plus

                                                                       
Query: 1   catttttacagatctttaagttttgtacaatgtgttggtgattgtattcaacccctgccc 60
           ||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 201 catttttacagttctttaagttttgtacaatgtgttggtgattgtattcaacccctgccc 260

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

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

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

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

                                                                     
Query: 301 acaaatgcccaagaaactgattgaagacagtaacagatggaaaggtctccgtgcccag 358
           ||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||
Sbjct: 501 acaaatgcccaagaaactgattgaagacagtaaaagatggaaaggtctccgtgcccag 558


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: 18
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: 358
Length of database: 758
Length adjustment: 9
Effective length of query: 349
Effective length of database: 749
Effective search space:   261401
Effective search space used:   261401
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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