BAC Information

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BAC

Clone NameMSMg01-449J08
Chromosome17 (Build37)
Map Location 35,066,407 - 35,219,719
singlet/doubletdoublet
Overlap geneSlc44a4, Neu1, 1110038B12Rik, LOC667548, Hspa1b, Hspa1a, Hspa1l, Lsm2, Vars, D17H6S56E-3, Ng23, Msh5, Clic1, Ddah2, AU023871, G6b, Ly6g6c, Ly6g6d, Ly6g6e
Upstream geneRgl2, H2-Ke2, Wdr46, B3galt4, Rps18, Vps52, EG630499, LOC100042989, AA388235, H2-K1, LOC654352, Ring1, H2-Ke6, Slc39a7, Rxrb, Col11a2, LOC672505, H2-Pa, H2-Oa, Brd2, LOC100043003, LOC100043522, H2-DMa, H2-DMb2, H2-DMb1, Psmb9, Tap1, Psmb8, Tap2, H2-Ob, H2-Ab1, H2-Aa, H2-Eb1, H2-Eb2, H2-Ea, Btnl2, LOC100038862, LOC667442, BC051142, EG632126, Btnl5, LOC624681, Btnl7, Notch4, Gpsm3, Pbx2, Ager, Rnf5, Agpat1, Egfl8, Ppt2, Prrt1, Fkbpl, Crebl1, Tnxb, EG632302, C4b, Stk19-ps1, Skiv2l-ps1, LOC100043024, Cyp21a2-ps, Cyp21a1, C4a, Stk19, Dom3z, Skiv2l, Rdbp, Cfb, C2, Zbtb12, Ehmt2
Downstream geneBat5, Ly6g5c, Ly6g5b, Csnk2b, Bat4, D17H6S53E, Apom, LOC100043621, Bat3, Bat2, Aif1, EG667612, Lst1, Ltb, Tnf, Lta, Nfkbil1, Atp6v1g2, Bat1a, H2-D1, H2-Q1, EG667636, LOC100043066, H2-Q2, EG625285, LOC436493, H2-Q8, EG667662, H2-Q6, H2-Q7, EG667669, H2-Q10, Pou5f1, Tcf19, Cchcr1, Psors1c2, Cdsn, LOC674169, 2300002M23Rik, LOC672682, Dpcr1, EG433102, Vars2, Gtf2h4, Ddr1, LOC100043663, Ier3, Flot1, Tubb5, Mdc1, Nrm, 2310014H01Rik, Dhx16, 2310061I04Rik, 2610110G12Rik, Mrps18b, LOC100043673, Ppp1r10, LOC100043674, LOC667766, Abcf1, Prr3, Gna-rs1, H2-T24, H2-T23, H2-T22, EG547347, LOC667782, H2-Bl
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-449J08.T7 (MSMg01no449_j08.b1)MSMg01-449J08.TJ (MSMg01no449_j08.g1)
ACCAG537520AG537521
length756741
length of high quality
(start - end)		472 (79 - 550)489 (78 - 566)
definitionCHROMAT_FILE: MSMg01no449_j08.b1 PHD_FILE: MSMg01no449_j08.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 19:19:14 2005CHROMAT_FILE: MSMg01no449_j08.g1 PHD_FILE: MSMg01no449_j08.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 19:19:15 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(35,219,378 - 35,219,719)(35,066,407 - 35,066,898)
sequence
TTTTTTCTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXGG
GCGGAATTCTCTCCATTCCCCTCTACAAGTTGGGAAAGAGGACAAATAAT
CACACCAGTAACTAGGGGGTAACTTTCCTAGAGGGGAAGGCTTCCCCATC
TCCCTCATTGACCACATCTATCACAAAGAATAGTTGCTTAAACCAACTTC
CTAGTTTTCCAAACCAGAAAGGTGTGGTGGCACATGTCTTTAATCCCTTT
AATCCCAGCACTTGGGAGGCAGAGGCAGGTGGATTTCTGAGTTCGAGGCC
AGCCTGGTCTACAGAGTGAGTTCCTGTACTGCCAGGGCTACACAGAGAAA
CCCTGTTTCAAAAAACCAAAAAAAAAAAAAAGAAGGAAAGAAAAAAGAAA
GAGGTTAATCTAGGGGTGAAGAGAGAGCTCAGCCAAGTAAAAATGCTTGT
AATACAAACATGAGAATCCGAGTTTGAACTCAGGAGACACGACACACACA
CACACACACACAAAGCGCCAATCATGATGATGCAGACTTATAGTCCCAAC
ACTAGAGAGTCGAGGCAGATGGGCCCCAGGGCTCTCGAGCCAGCCAGCCT
GGCCTGCTTTATGAACTCCAGGCCAGTATCTACCTCCAAAAATAAGGTGG
ATATCTCCTGAGGACAATCACTGTGTGCTGTCCTGCTAGCCCCCACGCTC
TCGCGGAACCAACACAAACACGTACACACATACCCGATTCACACGCGACA
TGGCTT

AAAAACGATGAXXXXXXXXXXXXXXXXXXXXXXXXXXTCAAAAATGGGGG
TGAACTATAGAAGGTTACGCGAAAATGTTGTGTTTTTTGACCTGGTGACA
ATGGTGACCATGATATAGAATCCAGAGCCTTGGGCCTGAGAAGCAGGAAT
GGCCCTACCTCGGTAGCAGTCCCCCAGCCATGCACTAAGCAGTAGACATG
AATATTTTATTGTTTTATGGGTTTTGCTTGTTGCTTCAATTTTATTTATT
TACATCAGGCCTCTCTATGTATTCTTGGCTAGCTCCTACTATATAGACTA
GGCTAGATCTAACTCAAACCTTTCTTTTGTCCTTTGCCTCCCAAGCAATA
GAATCATGGATATGTGCAACCATTCTCAAGACAGAGTTGTGCTGTGGAGA
CCTCAGGGGCCTTTGTACTCTAAGTCCTCCCATGTCCACCTCCTAAATGT
CGGGATTACAGAGAAAGCCACCATGATGGTCTGGCATGTGATTTTTTTTT
TTTGTCTTGTTATCACCCTATGACATATACAGTTATTTATCCCACTTTGT
GTGAGAAAAACAGGTTATACTGCCTGGTCTATAGCCAGCCTGGGAAGTTG
TATCAAACTGCCTGAAGTGCCCCGGATAGGAAACCAGGATGTTTGGTTTA
TACCCCCTGATTATTTTGTTTTACCGCGGGGTGCCCTTATCTTGATCCAC
CCTGGACGAATCTACTTTGCCCCCCAGTCCAAGGACCCGAA
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no449_j08.b1 MSMg01no449_j08.b1 CHROMAT_FILE:
MSMg01no449_j08.b1 PHD_FILE: MSMg01no449_j08.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 19:19:14 2005
         (472 letters)



>mm_chr17_35219378_35220249
          Length = 872

 Score =  536 bits (277), Expect = e-156
 Identities = 322/351 (91%), Gaps = 23/351 (6%)
 Strand = Plus / Minus

                                                                       
Query: 1   gttgggaaagaggacaaataatcacaccagtaactagggggtaactttcctagaggggaa 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 342 gttgggaaagaggacaaataatcacaccagtaactagggggtaactttcctagaggggaa 283

                                                                       
Query: 61  ggcttccccatctccctcattgaccacatctatcacaaagaatagttgcttaaaccaact 120
           |||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||
Sbjct: 282 ggcttccccatctccctcattgaccacatctatcacaaagaatagtcgcttaaaccaact 223

                                                                       
Query: 121 tcctagttttccaaaccagaaaggtgtggtggcacatgtctttaatccctttaatcccag 180
           ||||||||||||||||||||||||||||||||||||||         |||||||||||||
Sbjct: 222 tcctagttttccaaaccagaaaggtgtggtggcacatg---------cctttaatcccag 172

                                                                       
Query: 181 cacttgggaggcagaggcaggtggatttctgagttcgaggccagcctggtctacagagtg 240
           ||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||
Sbjct: 171 cacttgggaggcagaggtaggtggatttctgagttcgaggccagcctggtctacagagtg 112

                                                                       
Query: 241 agttcctgtactgccagggctacacagagaaaccctgtttcaaaaaaccaaaaaaaaaaa 300
           |||||||| || |||||| ||| |||||||||||||||||||||||||||||||||||||
Sbjct: 111 agttcctggacagccaggactatacagagaaaccctgtttcaaaaaaccaaaaaaaaaaa 52

                                                              
Query: 301 aaa--------------gaaggaaagaaaaaagaaagaggttaatctaggg 337
           |||              ||||||||||||||||||||||||||||||||||
Sbjct: 51  aaaaaaaaaaaaaaaaggaaggaaagaaaaaagaaagaggttaatctaggg 1


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: 3
Number of successful extensions: 3
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2
Number of HSP's successfully gapped: 1
Length of query: 472
Length of database: 872
Length adjustment: 10
Effective length of query: 462
Effective length of database: 862
Effective search space:   398244
Effective search space used:   398244
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= MSMg01no449_j08.g1 MSMg01no449_j08.g1 CHROMAT_FILE:
MSMg01no449_j08.g1 PHD_FILE: MSMg01no449_j08.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 19:19:15 2005
         (489 letters)



>mm_chr17_35066207_35067095
          Length = 889

 Score =  851 bits (440), Expect = 0.0
 Identities = 478/492 (97%), Gaps = 3/492 (0%)
 Strand = Plus / Plus

                                                                       
Query: 1   ttgtgttttttgacctggtgacaatggtgaccatgatatagaatccagagccttgggcct 60
           ||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||
Sbjct: 201 ttgtgttttttgacctggtgacaatggtgaccatgatatagaagccagagccttgggcct 260

                                                                       
Query: 61  gagaagcaggaatggccctacctcggtagcagtcccccagccatgcactaagcagtagac 120
           |||||||||||||||||||||||||||||||||||||||||||||||||||||||| |||
Sbjct: 261 gagaagcaggaatggccctacctcggtagcagtcccccagccatgcactaagcagtggac 320

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

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

                                                                       
Query: 241 acctttcttttgtcctttgcctcccaagcaatagaatcatggatatgtgcaaccattctc 300
           |||  |||  || |||||||||||||||||||||||||||||||||| ||||||||||||
Sbjct: 441 accaatctcctggcctttgcctcccaagcaatagaatcatggatatgcgcaaccattctc 500

                                                                       
Query: 301 aagacagagttgtgctgtggagacctcaggggcctttgtactctaagtcctcccatgtcc 360
           |||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||
Sbjct: 501 aagacagagttgtgctgtggagacctcaggggcctttgtagtctaagtcctcccatgtcc 560

                                                                       
Query: 361 acctcctaaatgtcgggattacagagaaagccaccatgatggtctggcatgtgatttttt 420
           || | |||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 561 acattctaaatgtcgggattacagagaaagccaccatgatggtctggcatgtgatttttt 620

                                                                       
Query: 421 tttttt---gtcttgttatcaccctatgacatatacagttatttatcccactttgtgtga 477
           ||||||   |||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 621 tttttttttgtcttgttatcaccctatgacatatacagttatttatcccactttgtgtga 680

                       
Query: 478 gaaaaacaggtt 489
           ||||||||||||
Sbjct: 681 gaaaaacaggtt 692


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: 3
Number of successful extensions: 3
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1
Number of HSP's successfully gapped: 1
Length of query: 489
Length of database: 889
Length adjustment: 10
Effective length of query: 479
Effective length of database: 879
Effective search space:   421041
Effective search space used:   421041
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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