BAC Information

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BAC

Clone NameMSMg01-271J18
Chromosome9 (Build37)
Map Location 41,927,016 - 41,927,306
singlet/doubletsinglet
Overlap geneSorl1
Upstream gene2810457I06Rik, LOC628495, LOC100042464, EG667566, 6720432D03Rik
Downstream geneSc5d, Tecta, Tbcel, Grik4, Arhgef12, LOC545339, Tmem136
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-271J18.T7 (MSMg01no271_j18.b1)MSMg01-271J18.TJ (MSMg01no271_j18.g1)
ACCAG411113AG411114
length764740
length of high quality
(start - end)
109 (122 - 230)292 (70 - 361)
definitionCHROMAT_FILE: MSMg01no271_j18.b1 PHD_FILE: MSMg01no271_j18.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 21:10:31 2005CHROMAT_FILE: MSMg01no271_j18.g1 PHD_FILE: MSMg01no271_j18.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 21:10:31 2005
singlet/doublet---singlet
BLAST hitno hit dataunique
sequence
XXXXXXXXXXXXXXXXXXXXXXXXXXTGCACACGAGATCCGCGGAATTCA
CTACCTTTCCCACACCTGTCTTTCTCCCTCCCTTCATACCTAGGTAAATA
ATATCAGCCATCTCTACTCTGTCTTACAGGCTGGGGTGGGGATATTGGAA
TTAGTCTAGCCCTGTATCATTTCATTTATTCATTCATGTGTGTGTGTGTG
TGTGTGTGTGTGTGTGTGTATGTGTGTNNNTTTNNNTTTTTTTTTTTTTT
NTNNNTTTTTTTTTTTTTTTTTTTTTTTTTTTTTNNNNNTNNNTNNNNTN
NNNTTTTTTTTTTTTTNNNNNNNNNNNNNNNNNNNNNNNNNNNNTTTNNT
TTTTTTTTCCCCCCCCCCCCCCTTATTTTTTTTTTTTATTTTATTTTTTT
CCCCCCCTAAAAAAAAAAAAAAAAAATTTTGGGGTGGGGGTTTCCCTTAC
CTTTTTTTGCTTATTTATTATTGTTTTTATTTCTCTCACTTCATTTCTTC
TTATTCTTCCTGACTTTTTTTTCCATCTTCCTATGTTTTGTTTCGTTCCA
GTTTTACCCCTTATCCCATCACTTTATATTTTAAGTTCCATTGTGTTTTT
AACTTCACATCTACCCTGCTCGTTCACCTATCGTTCTTTTTTTTTTTTTT
TTTTCCTCTTTCTTTCTTCCTCTTCTCCTTTTTCCCTTTATTTTTTTTTA
ACTCTTCATTCTAGTTTTTACGCCTTTCCCACTAAGTATATTTACCCCAA
TTTATTCATCCTCC
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXAAAGGATGGGAGGAGAACTTACCCACTGAGC
TTCCATAGTCTTCAGCAGATAATGCCTGCTAACAAAGCCATTGTGCTCTG
AGGAAATGTGTGGAGGCCGGTGAATCCTTTTGCGGTCTCCTGTATCCCCT
TCTCAGTTGGTAACACTTGTTGCCAGGTTATTGTTACGATTTCCTTACAG
AAATCTAACGCACAACATATAAGTATGAATGCACACAAAATCGAGTTATC
AGCAGCCTTTTATTGCCCATAGCCCTTGGTGTCATGAATAATGAGGTTAA
TTTAAACTCTTTATATATTTGCGCCCCCGGTGACCATGGGTAGTCAGGAT
GTCACCTAGAGAGTCACATATAAAATAGATGACTACTCCTTTTCCAGGCC
AGGTGTAAGAGTGCCCTCCCCTTTCCTCCCATAGGCCAGAAGGGCACTGT
TGCAGAGCCCCCTCGGAGCTGGCAGAGGGTCCAGCAGCCCCTAGAGGAGT
GGAACCCCACTTTGTGAGGACATCAGAATACAGGGAGCGTGTTAGCTTTG
TGTCCCTTTTGACACTCTTTCCATTGTATTCCTGTAAGATGAAGTTAGTG
CCTTGCTTAGTAAATTGCTTTGAGACCTGTATCCATGAGGCAGATCCTAA
CCGCACTGCATACTCAAGGCAAAGAGCATCTGTTGGAGGN
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no271_j18.g1 MSMg01no271_j18.g1 CHROMAT_FILE:
MSMg01no271_j18.g1 PHD_FILE: MSMg01no271_j18.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 21:10:31 2005
         (292 letters)



>mm_chr9_41926816_41927507
          Length = 692

 Score =  563 bits (291), Expect = e-165
 Identities = 291/291 (100%)
 Strand = Plus / Minus

                                                                       
Query: 1   aaaggatgggaggagaacttacccactgagcttccatagtcttcagcagataatgcctgc 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 491 aaaggatgggaggagaacttacccactgagcttccatagtcttcagcagataatgcctgc 432

                                                                       
Query: 61  taacaaagccattgtgctctgaggaaatgtgtggaggccggtgaatccttttgcggtctc 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 431 taacaaagccattgtgctctgaggaaatgtgtggaggccggtgaatccttttgcggtctc 372

                                                                       
Query: 121 ctgtatccccttctcagttggtaacacttgttgccaggttattgttacgatttccttaca 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 371 ctgtatccccttctcagttggtaacacttgttgccaggttattgttacgatttccttaca 312

                                                                       
Query: 181 gaaatctaacgcacaacatataagtatgaatgcacacaaaatcgagttatcagcagcctt 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 311 gaaatctaacgcacaacatataagtatgaatgcacacaaaatcgagttatcagcagcctt 252

                                                              
Query: 241 ttattgcccatagcccttggtgtcatgaataatgaggttaatttaaactct 291
           |||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 251 ttattgcccatagcccttggtgtcatgaataatgaggttaatttaaactct 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: 14
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: 292
Length of database: 692
Length adjustment: 9
Effective length of query: 283
Effective length of database: 683
Effective search space:   193289
Effective search space used:   193289
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)