BAC Information

Click to search

BAC

Clone NameMSMg01-438P06
Chromosome9 (Build37)
Map Location 48,289,983 - 48,418,511
singlet/doubletdoublet
Overlap geneRbm7, EG434402, Nnmt
Upstream geneCadm1, LOC100043303, D930028F11Rik, 4432416J03Rik, EG640268, EG434401, LOC667933, Rexo2
Downstream geneZbtb16, Htr3a, Htr3b, Usp28, LOC100042785, Zw10, EG629400, Tmprss5, EG235327, Drd2, Ankk1, Ttc12, Ncam1
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-438P06.T7 (MSMg01no438_p06.b1)MSMg01-438P06.TJ (MSMg01no438_p06.g1)
ACCAG529425AG529426
length771770
length of high quality
(start - end)		534 (40 - 573)450 (69 - 518)
definitionCHROMAT_FILE: MSMg01no438_p06.b1 PHD_FILE: MSMg01no438_p06.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 19:04:55 2005CHROMAT_FILE: MSMg01no438_p06.g1 PHD_FILE: MSMg01no438_p06.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 19:04:55 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(48,418,016 - 48,418,511)(48,289,983 - 48,290,432)
sequence
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAATTCT
TCCTTTCTCCTGCACCTGTAGTGGGGCATGGTTCCCCCTTCCTCCAGCTG
GCAAGGGGGTTGGGGCTGTTCTACTATGGTGACAGCTGAAATGAACACAC
ATTGCTTCTCTTTGCAGCCTTTCTACTGTTTAAGAATCCCTAAACAATAG
TTCACTTTTGTCTGCTTTATGCTTCATAGAAAGGGAATCTACAAGGTCTT
CTTATGATTGGCTGCTTTCACCCCACACCACATGGAGAATCCCCAGCTGA
TGCCTATAAGCTGCCCCAGATGCCTCATTCTGGCTTATTCCCACTTGATT
CCCTCCACTGTTGCCAGGCAGTTATATTGTTTCTAGTTGAGGCTGTCATG
GGTCATCTTCCTTTACCATTTGAACGGATTTGGAATCACTCATGACACAT
ACTTCCGGGTGTGTCCTTCAGGACATTTCCTGGAAGGGTTAAGTAAGCAG
AGAAGACTCAGCTTGGGTGTGGGCAACATCATCCCATTGGCTGGTGTCCT
GGGGTAAGGGAGGAAGTGAGCCCAACACCAACATTCAAGTCTCTCTGCTT
CCTGTGGAACACAAGAGAACCAGCCACTTCACACTCCTTCCCACTATGCC
TTCCTGGTGTGAAGGTCATAATCCCCCCAAAGGGGTAGCCAAAAGAAACA
CCCCATTCCACAAAATGGCTTTGGTAGGGTATTTATCCCATCCCCACCAA
AATTATTTCTAATGTGTATTC

CTXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXTGCCTCCCAAGTACTAGGATTAAAAGTGTGCA
ACACCACACCTGGCTATATAGGAATTTGAATCCGCTGGGCTTATTCTCAG
TATTACTTCTTTACATTTTGAAAGGATAACATCCTTAGGCTGGAGAGATG
GCTCAAAGGTTAAGTAAGAGTACTTGCTGCTCTTGCAGGGGATTGAACTT
CAGCTCCGAGGGATTGTGTTGCCCTCTTCAAACCTTAGTGGGCACCAGTA
AACACACATACACACACGTACACACACATACACACTGCACAAATAGAGAT
CTTTTTTTTATTACACCTTTGGTGGTGGTATTTAACAATTTATATCCTGA
AAAACCACACCCATGATTTTTTTTTAACAATGAATGGTTACATTTAACAA
TGAAAAATTATAGCTATGTAAATAGCCACAGGGAACCCTATCTCAAAAAT
AAACAGAAACTATGTGTGGGAGTTTTAGAACCTTTCACGTTTATTCAGCT
AAGGTAATGTGTTCTGTTACAATGATAAGTACAGATTTAGTGTTCTTACC
ATAATAAAACAGTTATTTTCCCTAAATTCTAAAGAAATTGCCAAACAGAA
AATGGTAAAAAAAACTAGATATTGATTTTTGGCCCGTTTGTGCCAACAAA
AAAGGGGGATAAATGGGGCTAAGGGCTTCCCCCCCTTACAATGACCACTT
TTAACTTGGGGAAAGGGTTG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no438_p06.b1 MSMg01no438_p06.b1 CHROMAT_FILE:
MSMg01no438_p06.b1 PHD_FILE: MSMg01no438_p06.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 19:04:55 2005
         (534 letters)



>mm_chr9_48417578_48418511
          Length = 934

 Score =  951 bits (492), Expect = 0.0
 Identities = 495/496 (99%)
 Strand = Plus / Minus

                                                                       
Query: 38  catggttcccccttcctccagctggcaagggggttggggctgttctactatggtgacagc 97
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 934 catggttcccccttcctccagctggcaagggggttggggctgttctactatggtgacagc 875

                                                                       
Query: 98  tgaaatgaacacacattgcttctctttgcagcctttctactgtttaagaatccctaaaca 157
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 874 tgaaatgaacacacattgcttctctttgcagcctttctactgtttaagaatccctaaaca 815

                                                                       
Query: 158 atagttcacttttgtctgctttatgcttcatagaaagggaatctacaaggtcttcttatg 217
            |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 814 gtagttcacttttgtctgctttatgcttcatagaaagggaatctacaaggtcttcttatg 755

                                                                       
Query: 218 attggctgctttcaccccacaccacatggagaatccccagctgatgcctataagctgccc 277
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 754 attggctgctttcaccccacaccacatggagaatccccagctgatgcctataagctgccc 695

                                                                       
Query: 278 cagatgcctcattctggcttattcccacttgattccctccactgttgccaggcagttata 337
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 694 cagatgcctcattctggcttattcccacttgattccctccactgttgccaggcagttata 635

                                                                       
Query: 338 ttgtttctagttgaggctgtcatgggtcatcttcctttaccatttgaacggatttggaat 397
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 634 ttgtttctagttgaggctgtcatgggtcatcttcctttaccatttgaacggatttggaat 575

                                                                       
Query: 398 cactcatgacacatacttccgggtgtgtccttcaggacatttcctggaagggttaagtaa 457
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 574 cactcatgacacatacttccgggtgtgtccttcaggacatttcctggaagggttaagtaa 515

                                                                       
Query: 458 gcagagaagactcagcttgggtgtgggcaacatcatcccattggctggtgtcctggggta 517
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 514 gcagagaagactcagcttgggtgtgggcaacatcatcccattggctggtgtcctggggta 455

                           
Query: 518 agggaggaagtgagcc 533
           ||||||||||||||||
Sbjct: 454 agggaggaagtgagcc 439


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: 24
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: 534
Length of database: 934
Length adjustment: 10
Effective length of query: 524
Effective length of database: 924
Effective search space:   484176
Effective search space used:   484176
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= MSMg01no438_p06.g1 MSMg01no438_p06.g1 CHROMAT_FILE:
MSMg01no438_p06.g1 PHD_FILE: MSMg01no438_p06.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 19:04:55 2005
         (450 letters)



>mm_chr9_48289783_48290632
          Length = 850

 Score =  870 bits (450), Expect = 0.0
 Identities = 450/450 (100%)
 Strand = Plus / Plus

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

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

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

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

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

                                                                       
Query: 301 ttggtggtggtatttaacaatttatatcctgaaaaaccacacccatgatttttttttaac 360
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 501 ttggtggtggtatttaacaatttatatcctgaaaaaccacacccatgatttttttttaac 560

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

                                         
Query: 421 tatctcaaaaataaacagaaactatgtgtg 450
           ||||||||||||||||||||||||||||||
Sbjct: 621 tatctcaaaaataaacagaaactatgtgtg 650


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: 27
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: 450
Length of database: 850
Length adjustment: 10
Effective length of query: 440
Effective length of database: 840
Effective search space:   369600
Effective search space used:   369600
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)


| Home | SequenceCutter | Blast | Download |