BAC Information

Click to search

BAC

Clone NameMSMg01-374O03
Chromosome6 (Build37)
Map Location 54,993,697 - 54,993,936
singlet/doubletsinglet
Overlap geneGars
Upstream geneLOC666305, Chn2, LOC100042056, Prr15, EG640926, Wipf3, Scrn1, Fkbp14, Plekha8, LOC100041292, 2410066E13Rik, Znrf2, Nod1, A030007L17Rik
Downstream geneCrhr2, Inmt, C330043M08Rik, Aqp1, Ghrhr, Adcyap1r1, LOC100042219, Neurod6, LOC100041339, Ccdc129, Gsbs
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-374O03.T7 (MSMg01no374_o03.b1)MSMg01-374O03.TJ (MSMg01no374_o03.g1)
ACCAG480570AG480571
length810781
length of high quality
(start - end)
239 (80 - 318)518 (77 - 594)
definitionCHROMAT_FILE: MSMg01no374_o03.b1 PHD_FILE: MSMg01no374_o03.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 23:14:16 2005CHROMAT_FILE: MSMg01no374_o03.g1 PHD_FILE: MSMg01no374_o03.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 23:14:16 2005
singlet/doubletsinglet---
BLAST hituniqueno hit data
sequence
CATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXTCGTGAGGTGCGCGGAAT
TCTCACCAGGTTCGTGAAAGAGGACCATAGGTAATGAGTAGAAAGGATTT
AAAATGCACTATCCCAAGTCACTTTTAGTCTTTTAAGGCACAGGTATTGA
GTGGCCAGCCTTCATATGAGTTCTGTGAGGGAGACTTCCTACCGTTAAGG
TCACTATCTTTTCCAGCCTAGCAAAGAAGGGGAAATTCACATTTATTCTG
AGTAATATAGACAAATTAAGATCTCGATTTATTTTAAACCAAAAAAATCA
TAGAGAATCCTTAGACTCTTTTTTTTCTACTAGCTAACTATTTTTCTTCA
GCACCCAACCTCATCTTGCCGCTTCTGTGAGCACAGTGAATGGAACTGGC
CTGTACTGCATCACGACTTATACTATAAGCCCTGTTCCCAGGTGGAGGAT
TACAATATACACACTCCCACACTAACTTCACTTTCACTCTTTTTTTCTCT
TATTTCTTCACACTCTCAAGTTTACTTTGCGAACTCTTACTCTCTTAGCA
TAATATTCTTCTCTCTCCCTCTACTCTTTCTCTTCTCCTCTCATACAAAT
TCATTACTCTCTTGTCTTTTTTTCTTTATTTCTTCACTATTAATTGTTCA
TCTCGTTTTCCTGTGTGTAAGCGCTTCTCTTTTTTTTTTCCTCTCTGTTG
GCTTCACCTTTCTCCATTTTTCCCTTCCTGGCATTACATACCTTTTCTGT
TATTCCCTGCACATTCATTGTATTTCATCATGGTGTCATTGTCCCCTTCC
CTTTTTTTTG
CGATTGCXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXAAATGCCAGAAACTATGGGGACAT
TTTATTCAAACCACCACAGCAGTGAACAGTGACACTTATTATAAGATGCA
GCATGGAACATGGAATTTTGCTAAGAAAGACTCACGTGCTGAGGCAAGAC
ATGTGGTGAGCCAAGACCCATGGAGGACATGTGATGTTTGAAGGGAGTAT
AAATAGGACTCATGGAACAGTGATGAGGGCCTGGTTTGCTTGCATAGCTA
ACTTAAAACGTCTTCCCTGGTCTTCACTTCATTGAGAGAGGCATGGCAAA
GAATTTCTTCTTGTGTCCCAGGTGGTCCTGGTCCCAGGGCCTGCTGACTT
GTGCCAATTAGGCTGAGGCCTGGCTGTCTCTGCTGTGTCATGCCACCACT
GCTGATTCATGTTTGCTATCCTGACTCTACCGAACTGGACTTCTTTTATA
TTCCTGAAATATTTTTGAGTAGATTGAGCTACCACTGCTGAATCCTGTGA
GCTGAACCTCTGATTTCCTGACAACACAGATGGGATTTGCTCCAAAGAAC
AATTTCTAAACAGGTCCACTTCCCCCTGTACCCTAATAACCTTTCTTTTC
CAATACCTCTGGCGGGTGGTGGGTCAATAGCGTATGTCCACGCCATTTAA
CAATCTTTTTCACACTTTATGTGGAAAAACCTCCAACTCTTACCCTTGCG
TTATTCCCTTCCCTCTTCAGAATCCACGCAN
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no374_o03.b1 MSMg01no374_o03.b1 CHROMAT_FILE:
MSMg01no374_o03.b1 PHD_FILE: MSMg01no374_o03.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 23:14:16 2005
         (239 letters)



>mm_chr6_54993497_54994136
          Length = 640

 Score =  360 bits (186), Expect = e-104
 Identities = 228/244 (93%), Gaps = 9/244 (3%)
 Strand = Plus / Minus

                                                                       
Query: 1   ggtaatgagtagaaaggatttaaaatgcactatcccaagtcacttttagtcttttaaggc 60
           |||| |||||||||||||||||||||||||||||||||||||||||||||||||| ||||
Sbjct: 440 ggtattgagtagaaaggatttaaaatgcactatcccaagtcacttttagtcttttgaggc 381

                                                                       
Query: 61  acaggtattgagtggccagccttcatat--gagttctgtgagggagacttcctaccgtta 118
           ||||||||||||||||||||||||||||  |||| ||||||||||| |||||||||||| 
Sbjct: 380 acaggtattgagtggccagccttcatatgagagtcctgtgagggaggcttcctaccgttg 321

                                                                       
Query: 119 aggtcactatcttttccagcctagcaaagaaggggaaattcacatttattctgagtaata 178
           ||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 320 aggtcactatc-tttccagcctagcaaagaaggggaaattcacatttattctgagtaata 262

                                                                       
Query: 179 tagacaaattaagatctcgatttattttaaaccaaaaaaa--tcatagagaat-ccttag 235
           |||| ||||||||||||| |||||||||||||||||||||  |||  |||| | ||||||
Sbjct: 261 tagagaaattaagatctcaatttattttaaaccaaaaaaaaatca--gaga-tgccttag 205

               
Query: 236 actc 239
           ||||
Sbjct: 204 actc 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: 7
Number of extensions: 2
Number of successful extensions: 2
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1
Number of HSP's successfully gapped: 1
Length of query: 239
Length of database: 640
Length adjustment: 9
Effective length of query: 230
Effective length of database: 631
Effective search space:   145130
Effective search space used:   145130
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)