BAC Information

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BAC

Clone NameMSMg01-345A05
Chromosome9 (Build37)
Map Location 42,271,652 - 42,400,094
singlet/doubletdoublet
Overlap geneTbcel, Grik4
Upstream geneLOC100042464, EG667566, 6720432D03Rik, Sorl1, Sc5d, Tecta
Downstream geneArhgef12, LOC545339, Tmem136, Pou2f3, LOC628726, Oaf, D630033O11Rik, Trim29
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-345A05.T7 (MSMg01no345_a05.b1)MSMg01-345A05.TJ (MSMg01no345_a05.g1)
ACCAG457938AG457939
length725732
length of high quality
(start - end)		274 (328 - 601)444 (68 - 511)
definitionCHROMAT_FILE: MSMg01no345_a05.b1 PHD_FILE: MSMg01no345_a05.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 22:35:22 2005CHROMAT_FILE: MSMg01no345_a05.g1 PHD_FILE: MSMg01no345_a05.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 22:35:22 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(42,271,652 - 42,271,925)(42,399,651 - 42,400,094)
sequence
XXXXXXXXXXXXXXXXXXXXXXXXXXXTCCGAGAATGCGCGGAATTCACT
GGGGAATTACGTGAATAAACAAATGTCTTCAAGCACACAAATGAAAAAGA
AGGCCACACACTGTCCTTGCTCATTTGACAGAACATGTCTTCAGGATCAC
AAGTTCACAGGAACTAATCTGTGCTTCCTGGAAGAACTTCTGTTCTATAT
CCACAAACTCAAGGTGACTTTGCAGAAAAACATTGAGAACAACCAAACCA
ACTACACCGTGTTTGAGAACAACTCCAGGGAAAGAATAGGCCAAGAAAAG
AGAAACCGGGCCCAGGGTTCTTTTGTAAATAATGCATGAAGGGGCAGAGA
AACCAGCTGGAAAAACTTAAAAGCAGTCAATAATTAATCCTGAAACAGTG
AATATAGGTCTGAGGATAAAGAAAAGAGGGATAGAAAAGAAACTGAATGC
CAACCTCAGAGCACAGGAAAAACCTCAACTCCAGACAAAACCCAAAAGCA
AGCCCCTTCCTTCCCCAGAGGCAGACCTGCACTGCTCCTAAGGTCCCTCC
TAGTAAGGCAGACAGGCTCGCCTCCTAAAGCCACTCCCCCAGGGGCAGAC
AGGCACTTCTCCCAGAGCTCCTCCCACGAAAGCGCACAGGCACTCCTCCT
AAGAACTGCTCTATGCCCTTGACTTTGAAAACTCCTAACAAAACATCTCC
AACACAGAAAGGAGTTGACCGTATA

GXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXATTCTGGCTTTCTGGCTAAGTAATATGCCCATG
TGCCTATATTTTCTTTATCCATTTGCCTTGTCTGTATTTTTACTTAGCCT
GCCATCTTGGAAGTATCTTTGCATCCTTAGCAATAGGTCTGTGCATAAAA
GAAGAAGTGGGCCCAGGGGCCTGGGATGGTGGGAAAGGCCAGATGGTAAC
TTATAATAGCATAAAGGGGTTTCACCTTGGCTCTATGCAGTGGGACTCAT
GTGCGTTCCTAAGAAGAGAATGCTCCTGAAGGAGTACTTTGGGGAGTGGG
TAGAATGGGTAGAAGAGGGCAGCTAATCACCACTTCTAAGGCTGCCTGTT
ATTCAAGCTCCATCCCTTCTCCTATCCCCTCAAGTCCCTGACCTCCTGTG
CTCAGCCCTCCCCATCCCACATGGCTGCAATGCCAGGGCTAAGATGAGAC
TGACAGCTGCCCAGTTTTGCTGCAGGAAAACCCATACTTAATGCTGAAGG
GGAACCACCATTAGATGGAAGGCAATGATCGATATGAGGGATTCTGTGTG
GACATGTTCAGGGATTTGGCTGATATCCTATTGTTTCACTACTACAACCG
CCTCGTCGGGTGTGGTGTTTACCGTTTATCTGAAGCCACCGTCACCCTTT
TTTGCCCGTTCTTTTTGTCTGTTTGTTTCTTG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no345_a05.b1 MSMg01no345_a05.b1 CHROMAT_FILE:
MSMg01no345_a05.b1 PHD_FILE: MSMg01no345_a05.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 22:35:22 2005
         (274 letters)



>mm_chr9_42271452_42272125
          Length = 674

 Score =  530 bits (274), Expect = e-155
 Identities = 274/274 (100%)
 Strand = Plus / Plus

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

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

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

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

                                             
Query: 241 tcgcctcctaaagccactcccccaggggcagaca 274
           ||||||||||||||||||||||||||||||||||
Sbjct: 441 tcgcctcctaaagccactcccccaggggcagaca 474


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: 17
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: 274
Length of database: 674
Length adjustment: 9
Effective length of query: 265
Effective length of database: 665
Effective search space:   176225
Effective search space used:   176225
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= MSMg01no345_a05.g1 MSMg01no345_a05.g1 CHROMAT_FILE:
MSMg01no345_a05.g1 PHD_FILE: MSMg01no345_a05.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 22:35:22 2005
         (444 letters)



>mm_chr9_42399451_42400294
          Length = 844

 Score =  843 bits (436), Expect = 0.0
 Identities = 442/444 (99%)
 Strand = Plus / Minus

                                                                       
Query: 1   attctggctttctggctaagtaatatgcccatgtgcctatattttctttatccatttgcc 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 644 attctggctttctggctaagtaatatgcccatgtgcctatattttctttatccatttgcc 585

                                                                       
Query: 61  ttgtctgtatttttacttagcctgccatcttggaagtatctttgcatccttagcaatagg 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 584 ttgtctgtatttttacttagcctgccatcttggaagtatctttgcatccttagcaatagg 525

                                                                       
Query: 121 tctgtgcataaaagaagaagtgggcccaggggcctgggatggtgggaaaggccagatggt 180
           |||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |
Sbjct: 524 tctgtgcataaaagaagaagtgggcccaggggcctgggatggtgggaaaggccagatgat 465

                                                                       
Query: 181 aacttataatagcataaaggggtttcaccttggctctatgcagtgggactcatgtgcgtt 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 464 aacttataatagcataaaggggtttcaccttggctctatgcagtgggactcatgtgcgtt 405

                                                                       
Query: 241 cctaagaagagaatgctcctgaaggagtactttggggagtgggtagaatgggtagaagag 300
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 404 cctaagaagagaatgctcctgaaggagtactttggggagtgggtagaatgggtagaagag 345

                                                                       
Query: 301 ggcagctaatcaccacttctaaggctgcctgttattcaagctccatcccttctcctatcc 360
           |||||||||||||||||||||||||||||||||| |||||||||||||||||||||||||
Sbjct: 344 ggcagctaatcaccacttctaaggctgcctgttactcaagctccatcccttctcctatcc 285

                                                                       
Query: 361 cctcaagtccctgacctcctgtgctcagccctccccatcccacatggctgcaatgccagg 420
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 284 cctcaagtccctgacctcctgtgctcagccctccccatcccacatggctgcaatgccagg 225

                                   
Query: 421 gctaagatgagactgacagctgcc 444
           ||||||||||||||||||||||||
Sbjct: 224 gctaagatgagactgacagctgcc 201


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: 21
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: 444
Length of database: 844
Length adjustment: 10
Effective length of query: 434
Effective length of database: 834
Effective search space:   361956
Effective search space used:   361956
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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