BAC Information

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BAC

Clone NameMSMg01-539D23
Chromosome4 (Build37)
Map Location 127,605,769 - 127,754,903
singlet/doubletdoublet
Overlap geneLOC635169
Upstream geneSfpq, Zmym1, LOC665245, Zmym6, LOC100039968, LOC621588, Dlgap3, BC003266, Gja4, Gjb3, Gjb4, Gjb5, LOC667296
Downstream gene4930465A12Rik, Hmgb4, 4930546G22Rik, Zscan20, Tlr12, Phc2, A3galt2, BC039093, LOC667354, Trim62, Adc, Ak2, Ibrdc3
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-539D23.T7 (MSMg01no539_d23.b1)MSMg01-539D23.TJ (MSMg01no539_d23.g1)
ACCAG605784AG605785
length768783
length of high quality
(start - end)		597 (72 - 668)607 (73 - 679)
definitionCHROMAT_FILE: MSMg01no539_d23.b1 PHD_FILE: MSMg01no539_d23.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 21:18:08 2005CHROMAT_FILE: MSMg01no539_d23.g1 PHD_FILE: MSMg01no539_d23.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 21:18:08 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(127,605,769 - 127,606,365)(127,754,363 - 127,754,903)
sequence
NCTCCXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXTTTCATAAATGGGNN
GGAATTAGNNAGTTTTCCTGTGTCTTCCCAGCTCAGCTAGCTTCCTGGCT
CAGCCTTGCTAAATCACACCCTTTCTTTCAACACTCCTCTGAGAAGTAGC
CTTGCGACACCACTGACTGAGTGCCTGCCTTGTGGCGTGACCCTCAGGGA
AGAACCAGCAAAGATATATGTCTCTGCTTCGAAAAGCAGAGATCCCCATA
CCTCTCTGCTGCCTTTGCTGGCACTCTTGCATGCTTCCTTCAAAACAGAG
CTCAAAGGCCATCTCCTCTTCGGTGAAGCTTCCCCTGACCTCTTCAGACC
AAACAGCTAACACAGACTCCTGGGGTCTGACTGCAATTTCTTCACCCATC
TCCTATCAGACTTTGGATGGAACCGGGGCTTAATACCAATTGCCGCAGAG
CAAACGGCCAGATTTAGCCTAATCCAGGCATTCTCAGCCACTTTTCCGCT
AGGCAGATGCGTATTATAAAAGAGAGTCACCTTCAAGGCACTCTCCCATA
AAATGAAGAAACAACAAAGGGGGAGGGGGACGGAGGGACAGAGTGATGGA
AGCAGACCACGGTGAGGGTGTTAATCATGTTAGCTGCTCGGTACCATCTG
TGGCTCTCTAGTGGCGACAGTCCATAGACCAGCTAAAGGTTGGGTAATAT
TCCATTTTCTTCTACTAAATAAGTTCCAGAACACAGAGAGAATACTCGAT
GTTCAGCACCCATCCAGG

ATGCTGTGTGGXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXAGTGACTAAGAAGTAAAAGGGCAGCCAG
TAGCTAGAAACAGGACTCCAGGGCAAAGTGCTAGCCTCTTACCGGAGAAG
AAGCCTGGGGAGATGGTCTAGGCAGACCTGGCTCCAGACGCTGCAGGGCA
CATTGCTAGCTGACAAAGAGAGGCCCTGTCCTATGGAAGGCACTTTATTT
CAACCCTTCACACACAGTTCCAGCCTGTAGGAGCCCACTGGATCATTATG
GCTGCTTTATATGAGCAACTTGCAGGTGGAAAGCCTTGCAGTGTGGATGC
TATAATGCCGTGCACTAAGTGGTACATGATTTATGTTGCTGGGATGCATG
AAAAACAGTCAAGTCATTCATTCTACAACATAATGAGCAGCTGCTGTTGG
CCTGGCCTGGTTACTGAGAATACTAGAGAGAATAAAGCCCCGGTCACACG
AAACTTACATGCCAGTCCATGGAGGCTCTGTGAGCGCAAAGACTACAATG
TCAGATCGGTCGTCTGGGCTACGGAGAACAATGTACAGCCGACAGCGTTC
ATGTATCATGTCAAACATATGTGGAAGTTAGCAAAGAGACTCTTGAAGTG
CTGTAACTTGGTGTGTGGGTGTTCTTGATGTAGTGCTGTANGGCAGTTAT
CAAAGGGACCGGGACTGGAGCAGGCACGGACACACTGTAAGGTTTACGGA
GGGTGAAATAAGGGGAAGTGAGCCCGTGGGTGA
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no539_d23.b1 MSMg01no539_d23.b1 CHROMAT_FILE:
MSMg01no539_d23.b1 PHD_FILE: MSMg01no539_d23.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 21:18:08 2005
         (597 letters)



>mm_chr4_127605569_127606565
          Length = 997

 Score = 1077 bits (557), Expect = 0.0
 Identities = 587/597 (98%)
 Strand = Plus / Plus

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

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

                                                                       
Query: 121 cctcagggaagaaccagcaaagatatatgtctctgcttcgaaaagcagagatccccatac 180
           ||||||||||||||||| |||||||||||| |||||||||||||||||||||||||||||
Sbjct: 321 cctcagggaagaaccagtaaagatatatgtgtctgcttcgaaaagcagagatccccatac 380

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

                                                                       
Query: 241 tctcctcttcggtgaagcttcccctgacctcttcagaccaaacagctaacacagactcct 300
           ||||||||||||||||||||||||||||||||||||||  ||||||||||||||||||||
Sbjct: 441 tctcctcttcggtgaagcttcccctgacctcttcagactgaacagctaacacagactcct 500

                                                                       
Query: 301 ggggtctgactgcaatttcttcacccatctcctatcagactttggatggaaccggggctt 360
           ||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 501 gggatctgactgcaatttcttcacccatctcctatcagactttggatggaaccggggctt 560

                                                                       
Query: 361 aataccaattgccgcagagcaaacggccagatttagcctaatccaggcattctcagccac 420
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 561 aataccaattgccgcagagcaaacggccagatttagcctaatccaggcattctcagccac 620

                                                                       
Query: 421 ttttccgctaggcagatgcgtattataaaagagagtcaccttcaaggcactctcccataa 480
           ||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||
Sbjct: 621 ttttccgctaggcagatgcatattataaaagagagtcaccttcaaggcactctcccataa 680

                                                                       
Query: 481 aatgaagaaacaacaaagggggagggggacggagggacagagtgatggaagcagaccacg 540
           |||||||||||||||||| |||||||| | ||||||||||||||||||||||||||||||
Sbjct: 681 aatgaagaaacaacaaagagggaggggaagggagggacagagtgatggaagcagaccacg 740

                                                                    
Query: 541 gtgagggtgttaatcatgttagctgctcggtaccatctgtggctctctagtggcgac 597
           ||||||||||||||| |||||||||||||||||||||||||||||||||||||||||
Sbjct: 741 gtgagggtgttaatcgtgttagctgctcggtaccatctgtggctctctagtggcgac 797


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: 29
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: 597
Length of database: 997
Length adjustment: 10
Effective length of query: 587
Effective length of database: 987
Effective search space:   579369
Effective search space used:   579369
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= MSMg01no539_d23.g1 MSMg01no539_d23.g1 CHROMAT_FILE:
MSMg01no539_d23.g1 PHD_FILE: MSMg01no539_d23.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 21:18:08 2005
         (607 letters)



>mm_chr4_127754363_127755369
          Length = 1007

 Score = 1007 bits (521), Expect = 0.0
 Identities = 536/541 (99%)
 Strand = Plus / Minus

                                                                       
Query: 1   agtgactaagaagtaaaagggcagccagtagctagaaacaggactccagggcaaagtgct 60
           |||||||||||||||||||||||||||||||||||||| ||||||||||||||||||| |
Sbjct: 541 agtgactaagaagtaaaagggcagccagtagctagaaataggactccagggcaaagtgtt 482

                                                                       
Query: 61  agcctcttaccggagaagaagcctggggagatggtctaggcagacctggctccagacgct 120
           ||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 481 agcctcttaccagagaagaagcctggggagatggtctaggcagacctggctccagacgct 422

                                                                       
Query: 121 gcagggcacattgctagctgacaaagagaggccctgtcctatggaaggcactttatttca 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 421 gcagggcacattgctagctgacaaagagaggccctgtcctatggaaggcactttatttca 362

                                                                       
Query: 181 acccttcacacacagttccagcctgtaggagcccactggatcattatggctgctttatat 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 361 acccttcacacacagttccagcctgtaggagcccactggatcattatggctgctttatat 302

                                                                       
Query: 241 gagcaacttgcaggtggaaagccttgcagtgtggatgctataatgccgtgcactaagtgg 300
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 301 gagcaacttgcaggtggaaagccttgcagtgtggatgctataatgccgtgcactaagtgg 242

                                                                       
Query: 301 tacatgatttatgttgctgggatgcatgaaaaacagtcaagtcattcattctacaacata 360
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 241 tacatgatttatgttgctgggatgcatgaaaaacagtcaagtcattcattctacaacata 182

                                                                       
Query: 361 atgagcagctgctgttggcctggcctggttactgagaatactagagagaataaagccccg 420
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 181 atgagcagctgctgttggcctggcctggttactgagaatactagagagaataaagccccg 122

                                                                       
Query: 421 gtcacacgaaacttacatgccagtccatggaggctctgtgagcgcaaagactacaatgtc 480
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 121 gtcacacgaaacttacatgccagtccatggaggctctgtgagcgcaaagactacaatgtc 62

                                                                       
Query: 481 agatcggtcgtctgggctacggagaacaatgtacagccgacagcgttcatgtatcatgtc 540
           |||||||||||||||||||| |||||||||||||| ||||||||||||||||||||||||
Sbjct: 61  agatcggtcgtctgggctacagagaacaatgtacaaccgacagcgttcatgtatcatgtc 2

            
Query: 541 a 541
           |
Sbjct: 1   a 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: 26
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: 607
Length of database: 1007
Length adjustment: 10
Effective length of query: 597
Effective length of database: 997
Effective search space:   595209
Effective search space used:   595209
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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