BAC Information

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BAC

Clone NameMSMg01-393B13
Chromosome3 (Build37)
Map Location 55,104,082 - 55,250,511
singlet/doubletdoublet
Overlap geneDclk1
Upstream geneTrpc4, Postn, LOC100039951, LOC434807, B020017C02Rik, D3Ertd300e, Exosc8, Alg5, Smad9, Rfxap, LOC545524, 6030405A18Rik, Ccna1, 4931419H13Rik, Spg20, A730037C10Rik, Sohlh2
Downstream geneMab21l1, 4933417G07Rik
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-393B13.T7 (MSMg01no393_b13.b1)MSMg01-393B13.TJ (MSMg01no393_b13.g1)
ACCAG494476AG494477
length757762
length of high quality
(start - end)		616 (34 - 649)417 (62 - 478)
definitionCHROMAT_FILE: MSMg01no393_b13.b1 PHD_FILE: MSMg01no393_b13.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 23:37:53 2005CHROMAT_FILE: MSMg01no393_b13.g1 PHD_FILE: MSMg01no393_b13.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 23:37:53 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(55,249,900 - 55,250,511)(55,104,082 - 55,104,498)
sequence
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAATTCCCTTAGA
GTTACTGTCAAAATCCTTGTCAGTTTAAAACCACAATTTGAAACATGGGG
AACAATCTGACCTAAATGGCCAGTAAATATAATGCCTTTCTGTTCATATA
AAGGACATTGCCACCTTCTCCTGCAAGGAAGAAATTGGTACCTCACATAT
GGGGGCACCCACCCTTCAACAATCACATCTTTTACTATGATTGGATCACG
TCTTTGACATTATTGATCAGTTCTGTAAGAGGTTGTGTGTCCTTTGTGGA
GATGCTGGACAATTCTGATGCTCCTCAAACACATTTTGAAATATGATTGT
AAACCGCATAAGAAATGGCCAGAGTTGCTATCAAATACCACAGTCTACTG
AGTGCACAGTTGTCCTTTGATATGAGTGGGGTTTGATTTCAGCTCCACAC
CATATATACCAAAGTCCATGAACACTGAAGTCTCTTATGAAATGGTATAT
TTAATAAGGCCAACTTGTAGTCTATGTAGAGTTTAAATCACCTGTAGATT
AATAAGCTACAATGCAAACTGTAGCTATATGCTGTTATTTAAATAATAAC
AATGAAGAAACAGACATGAACATTTGAAAATGTCCCCCACAGCGTCAGAT
GTTTTCAGAGCTGGATTTCCATTGGGGGTGCTGTTTGGGGTTTAGGAGGT
ATGGCATTGCTAGAGGAAGTATTTCACTGGGGTGAGCTTTGAGAGGTATA
ACCTTGG

GXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXACACCTTAGTGTATGAAAGGACAGGACCTGGATGATCAG
GGACAACTCATGTGGGATGGTTCATTTCTCTATTTGGTTTGTCACTGAGT
TCAGAGCCTGGCATGCCACCAGAGGTGAAGACGGGTGAGAGCTGCAGGAG
AGCGCAGAGTCAATGCAGATGCTGTTCTCAAAGCCAAGGAAAACTTTCAA
AGTATCTCAAAGCCATCAGGCTTGCTAGGTCAGAAACCAAGGCAGTATTT
TTCCATTTGCGCTCTACCCACTCCAGCTGGGCCCCTCCTCTTGAGTGTAC
TGCCCCTGGCCATCACAGAGTTGAACACACTGCCCCCAGCCCTCCAGCCT
CACACACTTTTATGCCTTTCTACTACAGTGGCTAGTTTTGAGAATTTGAC
TCATTCACCTGTGCTCCCCTCTTTGTTCTTCCGAAACTGTGTGGCTTTCT
TCTTTATTGCCGTGTGCATAGGAATGCATATGTGGCCATCCNAATCCCCG
TGCTGTAGCTGCCCAATTTCTGACTCATGTCTCCATGCCTGCTAACTTAT
AAATGGGAACCCTTTGTTCTAACTATAAAAAAGGTTTTCAATGGTTTCTA
CTTCCCCCTTCCTTTTGGGACACAAAAGGGGTCCCCCCCCCCCGGGGGGG
GTTTTCCCAATGGGACCTCTTTTTGAAAAAATCTTCCCTTTTCCCCCTTT
GGCCCCGCGAAN
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no393_b13.b1 MSMg01no393_b13.b1 CHROMAT_FILE:
MSMg01no393_b13.b1 PHD_FILE: MSMg01no393_b13.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 23:37:53 2005
         (616 letters)



>mm_chr3_55249696_55250711
          Length = 1016

 Score = 1129 bits (584), Expect = 0.0
 Identities = 605/612 (98%)
 Strand = Plus / Minus

                                                                       
Query: 5   gaattcccttagagttactgtcaaaatccttgtcagtttaaaaccacaatttgaaacatg 64
           ||||||||||||||  | ||||||||||||||||||||||||||||||||||||||||||
Sbjct: 816 gaattcccttagagagaatgtcaaaatccttgtcagtttaaaaccacaatttgaaacatg 757

                                                                       
Query: 65  gggaacaatctgacctaaatggccagtaaatataatgcctttctgttcatataaaggaca 124
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 756 gggaacaatctgacctaaatggccagtaaatataatgcctttctgttcatataaaggaca 697

                                                                       
Query: 125 ttgccaccttctcctgcaaggaagaaattggtacctcacatatgggggcacccacccttc 184
           |||||||||||||||||||||||||||||||||||||| |||||||||||||||||||||
Sbjct: 696 ttgccaccttctcctgcaaggaagaaattggtacctcatatatgggggcacccacccttc 637

                                                                       
Query: 185 aacaatcacatcttttactatgattggatcacgtctttgacattattgatcagttctgta 244
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 636 aacaatcacatcttttactatgattggatcacgtctttgacattattgatcagttctgta 577

                                                                       
Query: 245 agaggttgtgtgtcctttgtggagatgctggacaattctgatgctcctcaaacacatttt 304
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 576 agaggttgtgtgtcctttgtggagatgctggacaattctgatgctcctcaaacacatttt 517

                                                                       
Query: 305 gaaatatgattgtaaaccgcataagaaatggccagagttgctatcaaataccacagtcta 364
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 516 gaaatatgattgtaaaccgcataagaaatggccagagttgctatcaaataccacagtcta 457

                                                                       
Query: 365 ctgagtgcacagttgtcctttgatatgagtggggtttgatttcagctccacaccatatat 424
           |||| |||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 456 ctgaatgcacagttgtcctttgatatgagtggggtttgatttcagctccacaccatatat 397

                                                                       
Query: 425 accaaagtccatgaacactgaagtctcttatgaaatggtatatttaataaggccaacttg 484
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 396 accaaagtccatgaacactgaagtctcttatgaaatggtatatttaataaggccaacttg 337

                                                                       
Query: 485 tagtctatgtagagtttaaatcacctgtagattaataagctacaatgcaaactgtagcta 544
           ||||||||||||||||||||||||||||| || |||||||||||||||||||||||||||
Sbjct: 336 tagtctatgtagagtttaaatcacctgtaaataaataagctacaatgcaaactgtagcta 277

                                                                       
Query: 545 tatgctgttatttaaataataacaatgaagaaacagacatgaacatttgaaaatgtcccc 604
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 276 tatgctgttatttaaataataacaatgaagaaacagacatgaacatttgaaaatgtcccc 217

                       
Query: 605 cacagcgtcaga 616
           ||||||||||||
Sbjct: 216 cacagcgtcaga 205


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: 32
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: 616
Length of database: 1016
Length adjustment: 10
Effective length of query: 606
Effective length of database: 1006
Effective search space:   609636
Effective search space used:   609636
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= MSMg01no393_b13.g1 MSMg01no393_b13.g1 CHROMAT_FILE:
MSMg01no393_b13.g1 PHD_FILE: MSMg01no393_b13.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 23:37:53 2005
         (417 letters)



>mm_chr3_55103882_55104698
          Length = 817

 Score =  737 bits (381), Expect = 0.0
 Identities = 408/417 (97%)
 Strand = Plus / Plus

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

                                                                       
Query: 61  tcatttctctatttggtttgtcactgagttcagagcctggcatgccaccagaggtgaaga 120
           ||||||||| |||||||||||||||||| |||||||||||||||||||||||||||||||
Sbjct: 261 tcatttctccatttggtttgtcactgagatcagagcctggcatgccaccagaggtgaaga 320

                                                                       
Query: 121 cgggtgagagctgcaggagagcgcagagtcaatgcagatgctgttctcaaagccaaggaa 180
           |||||||||||||||||||||| | |||||||||||||||||||||||||||||||||||
Sbjct: 321 cgggtgagagctgcaggagagcactgagtcaatgcagatgctgttctcaaagccaaggaa 380

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

                                                                       
Query: 241 tccatttgcgctctacccactccagctgggcccctcctcttgagtgtactgcccctggcc 300
           ||||||||||| ||||| ||||||||||||||||||||||||||||||||||||||||||
Sbjct: 441 tccatttgcgcactacctactccagctgggcccctcctcttgagtgtactgcccctggcc 500

                                                                       
Query: 301 atcacagagttgaacacactgcccccagccctccagcctcacacacttttatgcctttct 360
           ||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||
Sbjct: 501 atcacagagttgaacacactgcccccagccctccagcctcagacacttttatgcctttct 560

                                                                    
Query: 361 actacagtggctagttttgagaatttgactcattcacctgtgctcccctctttgttc 417
           |||| |||||| |||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 561 actaaagtggccagttttgagaatttgactcattcacctgtgctcccctctttgttc 617


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: 19
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: 417
Length of database: 817
Length adjustment: 9
Effective length of query: 408
Effective length of database: 808
Effective search space:   329664
Effective search space used:   329664
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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