BAC Information

Click to search

BAC

Clone NameMSMg01-398A03
Chromosome5 (Build37)
Map Location 104,030,638 - 104,195,459
singlet/doubletdoublet
Overlap geneSlc10a6, 1700016H13Rik, Aff1
Upstream geneArhgap24, Mapk10, LOC666563, 4930429D17Rik, LOC100041039, 1700021F02Rik, LOC100041049, Ptpn13
Downstream geneKlhl8, Hsd17b13, EG666629, Hsd17b11, Nudt9, Sparcl1, LOC100041136, Dspp, Dmp1, LOC100041145, Ibsp, Mepe, Spp1, Pkd2, BC005561, LOC100042165, LOC100041172, D930016D06Rik, 2310012P17Rik, LOC640963, LOC100041199
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-398A03.T7 (MSMg01no398_a03.b1)MSMg01-398A03.TJ (MSMg01no398_a03.g1)
ACCAG498213AG498214
length757754
length of high quality
(start - end)
474 (68 - 541)502 (77 - 578)
definitionCHROMAT_FILE: MSMg01no398_a03.b1 PHD_FILE: MSMg01no398_a03.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:10:37 2005CHROMAT_FILE: MSMg01no398_a03.g1 PHD_FILE: MSMg01no398_a03.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:10:37 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(104,030,638 - 104,031,111)(104,194,958 - 104,195,459)
sequence
TTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGG
AATTCCAAGCCCATTGTCTTGCTAAGGACGAACTAGGACTGTTGGAACAC
TGGCGGACGGCTTTAGCTATGTCAGAATTCAATCTTAAAAGGCACTTATG
ATAGGAAAATATTGAAAGAGAGCACGTGGATCCATACACTAGACTAACTC
GGGAATGGAACACGGGAATGAAAAATTACTGTATGGGTAGGGAACGCTAG
ACTCCAGGAGGAGAGCTTCCTTGAAACTCTTTTGCCTCATGAGTGACTTT
TAAGCCTCTCGGCTTGTCCAGTTGACTCAACCAGAGAGCGTAGCAAATAG
TCATGATAAGCAAGGGAGAAGTGGACACCGAGGAAAGGTGGGTTTCAGCT
TTGTTCACAGAGAGCCTGCCCAAGCTTTTGGTTTGGAGATAACCAGGTAT
TAAGATGTGGTAAGACAAAGCCAAGAAACTCAGCAGCTTACAGCAGCAGC
TTCAGTCGCAGGCACTTGGCAGCGGGAGACATGTTTGTAATATTTAATTC
AGAAACATTTGAGGTACTTTTCTTTTGAGAGGGGTGGGGGTCAGTTCTGG
CTGTCTTGAAAATCATTCTTGTATACCAAGCTGGCCTGACAGAGACCTGC
CTGCCTCTGCCTTCCCAGTGCCTAGCCTAAAGGTGTGTGCCATCATCGGA
CCAGCTTTCAGATACCTTTTTTTTTTTTCCCCCCGAGAAAGGGGTTTTTC
CGTTTAG
GCGATGCTXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXTCAGCAAAGACTAACACTAATGAC
AAATGCTCATCCTGTTATACTGTCAGACAACCACTGTTCAGAATTTGATA
CTGTCTGTCAGACAGAAAGAATGGGTACTTTGGAGAGAGGTGCAGAATGT
GGGTTTGTGGAACTGTCCCTCAGCCTGTAAACCAAGATAAAGCACACATG
AAAAATACAACCTCAAAGATAACAACACTATCCACCAGGTCACTTGGAAG
ACACAAACCAGGATAATAACACATTATCTTTAGCCTCAGCACACAGAAGG
TTGAGAGACAGGAGGATGGCAAGTTTAAAGGGAAGGAAGGCCTGGTACTG
GTATCTACACACCAGAAACATTCATCAAAGGGCTATATTGATGGCTTAGC
AATTGAAAACACTGACTGTTCTTCCAGGGCTCCAGTTTGATTCCCAGCTC
CCACATGGTGCTCACCACAGTCAGTATTTCCTCTTTCAGGGATCCAGTGC
CCTCTTGTGGCTTCTGTAAGCACTGCACACACACATAGTACATACAATAC
ATGTAAAAAAGGTTTTTTTAAAAGCCATCTTGTCCATATCGGAAAACTCA
CGATCCCAGGATAGTTGAAAATCCCACTATCGGTCCGAGCCATTTAAGTC
TTTTCTCAGACCCCTTCCAACTACAAATAAGACTTCCTGTTTTCTCCTTA
ACAA
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no398_a03.b1 MSMg01no398_a03.b1 CHROMAT_FILE:
MSMg01no398_a03.b1 PHD_FILE: MSMg01no398_a03.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 18:10:37 2005
         (474 letters)



>mm_chr5_104030438_104031311
          Length = 874

 Score =  862 bits (446), Expect = 0.0
 Identities = 467/474 (98%)
 Strand = Plus / Plus

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

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

                                                                       
Query: 121 actagactaactcgggaatggaacacgggaatgaaaaattactgtatgggtagggaacgc 180
           ||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 321 actagactaacgcgggaatggaacacgggaatgaaaaattactgtatgggtagggaacgc 380

                                                                       
Query: 181 tagactccaggaggagagcttccttgaaactcttttgcctcatgagtgacttttaagcct 240
           ||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 381 tagactccaggaggaaagcttccttgaaactcttttgcctcatgagtgacttttaagcct 440

                                                                       
Query: 241 ctcggcttgtccagttgactcaaccagagagcgtagcaaatagtcatgataagcaaggga 300
           |||||||||||||||||||||||||||||| | |||||||||||||||||||||||||||
Sbjct: 441 ctcggcttgtccagttgactcaaccagagaacatagcaaatagtcatgataagcaaggga 500

                                                                       
Query: 301 gaagtggacaccgaggaaaggtgggtttcagctttgttcacagagagcctgcccaagctt 360
           ||||||||||||||||||||||||||||| |||||||||||||||||||| ||| |||||
Sbjct: 501 gaagtggacaccgaggaaaggtgggtttcggctttgttcacagagagcctccccgagctt 560

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

                                                                 
Query: 421 ttacagcagcagcttcagtcgcaggcacttggcagcgggagacatgtttgtaat 474
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 621 ttacagcagcagcttcagtcgcaggcacttggcagcgggagacatgtttgtaat 674


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: 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: 474
Length of database: 874
Length adjustment: 10
Effective length of query: 464
Effective length of database: 864
Effective search space:   400896
Effective search space used:   400896
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= MSMg01no398_a03.g1 MSMg01no398_a03.g1 CHROMAT_FILE:
MSMg01no398_a03.g1 PHD_FILE: MSMg01no398_a03.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 18:10:37 2005
         (502 letters)



>mm_chr5_104194907_104195808
          Length = 902

 Score =  917 bits (474), Expect = 0.0
 Identities = 495/502 (98%)
 Strand = Plus / Minus

                                                                       
Query: 1   tcagcaaagactaacactaatgacaaatgctcatcctgttatactgtcagacaaccactg 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 553 tcagcaaagactaacactaatgacaaatgctcatcctgttatactgtcagacaaccactg 494

                                                                       
Query: 61  ttcagaatttgatactgtctgtcagacagaaagaatgggtactttggagagaggtgcaga 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 493 ttcagaatttgatactgtctgtcagacagaaagaatgggtactttggagagaggtgcaga 434

                                                                       
Query: 121 atgtgggtttgtggaactgtccctcagcctgtaaaccaagataaagcacacatgaaaaat 180
           |||| |||||||||||||||||||||||||||||||||||||||||||||||||||||| 
Sbjct: 433 atgttggtttgtggaactgtccctcagcctgtaaaccaagataaagcacacatgaaaaac 374

                                                                       
Query: 181 acaacctcaaagataacaacactatccaccaggtcacttggaagacacaaaccaggataa 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 373 acaacctcaaagataacaacactatccaccaggtcacttggaagacacaaaccaggataa 314

                                                                       
Query: 241 taacacattatctttagcctcagcacacagaaggttgagagacaggaggatggcaagttt 300
           |||||||||||| |||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 313 taacacattatcattagcctcagcacacagaaggttgagagacaggaggatggcaagttt 254

                                                                       
Query: 301 aaagggaaggaaggcctggtactggtatctacacaccagaaacattcatcaaagggctat 360
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| 
Sbjct: 253 aaagggaaggaaggcctggtactggtatctacacaccagaaacattcatcaaagggctag 194

                                                                       
Query: 361 attgatggcttagcaattgaaaacactgactgttcttccagggctccagtttgattccca 420
           |||||||||||||||||||||||||||||||||||||||||| |||||||||||||||||
Sbjct: 193 attgatggcttagcaattgaaaacactgactgttcttccaggactccagtttgattccca 134

                                                                       
Query: 421 gctcccacatggtgctcaccacagtcagtatttcctctttcagggatccagtgccctctt 480
           ||||||||||||||||||||||||||||||| |||| |||||||||||||||||||||||
Sbjct: 133 gctcccacatggtgctcaccacagtcagtatctcctatttcagggatccagtgccctctt 74

                                 
Query: 481 gtggcttctgtaagcactgcac 502
           ||||||||||||||||||||||
Sbjct: 73  gtggcttctgtaagcactgcac 52


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: 2
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: 502
Length of database: 902
Length adjustment: 10
Effective length of query: 492
Effective length of database: 892
Effective search space:   438864
Effective search space used:   438864
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)