BAC Information

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BAC

Clone NameMSMg01-213F02
Chromosome5 (Build37)
Map Location 54,800,245 - 54,938,754
singlet/doubletdoublet
Overlap genenone
Upstream geneLOC100041911, Rbpj, Cckar, Tbc1d19, Stim2
Downstream geneEG666377, LOC666380
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-213F02.T7 (MSMg01no213_f02.b1)MSMg01-213F02.TJ (MSMg01no213_f02.g1)
ACCAG394354AG394355
length707777
length of high quality
(start - end)
316 (47 - 362)163 (76 - 238)
definitionCHROMAT_FILE: MSMg01no213_f02.b1 PHD_FILE: MSMg01no213_f02.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 20:39:19 2005CHROMAT_FILE: MSMg01no213_f02.g1 PHD_FILE: MSMg01no213_f02.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 20:39:19 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(54,938,444 - 54,938,754)(54,800,245 - 54,800,407)
sequence
TATCATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCG
GAATTCTAGGTTATCCACAGTAAGAAACCATACCATCGCCTTTGTAACAA
GCAACTGTATTCTAAACTATCACACTGGTGCTGAGATTTGTTGATGCAGG
GTCAACAGAATACTTGTTCTGTGACAGATGGTTTTCAGAAGGCAGCTATA
TACTATACAAAGATCATCACACTTGCTGTGTGCTGCCATATGTTCACTGA
CATGACCCCACTCAAGACCTCCTCCTCATTGAGCTTTGTCTAACCCTTTT
CTCTCTAAATTACTAAATCAAAAAACACTTTCCGGAAATATACACGTACC
CTTCTTTGGATTTTTTCCTCCTCCCCCCCCCATAAAAAATTTTAGTTTGT
CTTTGTTTTTTGGGAAGACTCCCCCTCATCACACTGTCTCTTAGGATGTT
ATGGGAATTTCCATATGACCATGGACATGTACTCTGGAAAAAGACTGCTA
ACTATGGTAAATCACATGGATTTACTATATTTAGTCGCTATAGTCTTTCC
CCCTGTGCTTGTGTCTCGCATTGCATTCACATTTTTTATTAGACATTTTC
CTTATTTACATTTTTTATGCCTGTTCCTTACGTCCCCTATTCCCTACCCC
CTGCCTTTGCTTTCTCTACCTTCTCACCTCCCACTTCTTTGACCTTGCCC
TTTCTTN
CATTACXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXTGTCTCCCTTGATGCTTATAGTTAA
ATTCTTGAGATCATCACTTTTGGCTTGTAAAATGGACATAAAGTTTTAAA
AACAATGTATACATTAAAGGGGGCAAAGACATAACATCATTTTTTAATGC
TCCAAAAGAAGGGTGGCAGGGCTTAGGGTCAAAAACTGCTCTGAGGTTAT
CACAATGTAGAGAGAAAGGCTTTTAAAATTGTCTTGTTCAGTTTTGAGGA
CTACAATGTAGGCTTCCATGACTTATGAAAAGCACTATTAACTACTTTCT
TCCTCCGGTTTATTTTTTTCGCCCCCCCCCCCCCCCGCTCCTATTGTATG
TCTCTGCTTTGTATTTCGCTACGTCACCGTACATACATGTTGTGTTTTTC
CTCCCGCCGCCTTTCTCCGATTCCTCCTTTTCCGCTTTCCACTAATCCTG
ATCCTGGTGACTAAATACACACTGCCACACAGTACCTCCTTTTTTTCCGA
ACCCTACAGATCCCAACGTTCGTTTTTCAAGCACCTGCGTCCCCTTTTCC
TTATTCTCTGTTTCTCTGCCTTCTCCGTTATTCTTTTTTCTCTACACCCA
TTTAACCGGCCAGCCAACTTCTGTTTCTATTTCTTTTTTCTGCACTTAAC
AATGCCCCCCATTTTTTTAATTTTCTCCTTCATTCCTGTTACCATCTTCT
GCGCCACCTATCTGTTTTTTCACGTAA
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no213_f02.b1 MSMg01no213_f02.b1 CHROMAT_FILE:
MSMg01no213_f02.b1 PHD_FILE: MSMg01no213_f02.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 20:39:19 2005
         (316 letters)



>mm_chr5_54938241_54938956
          Length = 716

 Score =  586 bits (303), Expect = e-172
 Identities = 309/311 (99%)
 Strand = Plus / Minus

                                                                       
Query: 4   ggaattctaggttatccacagtaagaaaccataccatcgcctttgtaacaagcaactgta 63
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 514 ggaattctaggttatccacagtaagaaaccataccatcgcctttgtaacaagcaactgta 455

                                                                       
Query: 64  ttctaaactatcacactggtgctgagatttgttgatgcagggtcaacagaatacttgttc 123
           ||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||
Sbjct: 454 ttctaaactatcacactggtgttgagatttgttgatgcagggtcaacagaatacttgttc 395

                                                                       
Query: 124 tgtgacagatggttttcagaaggcagctatatactatacaaagatcatcacacttgctgt 183
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 394 tgtgacagatggttttcagaaggcagctatatactatacaaagatcatcacacttgctgt 335

                                                                       
Query: 184 gtgctgccatatgttcactgacatgaccccactcaagacctcctcctcattgagctttgt 243
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 334 gtgctgccatatgttcactgacatgaccccactcaagacctcctcctcattgagctttgt 275

                                                                       
Query: 244 ctaacccttttctctctaaattactaaatcaaaaaacactttccggaaatatacacgtac 303
           ||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 274 ctagcccttttctctctaaattactaaatcaaaaaacactttccggaaatatacacgtac 215

                      
Query: 304 ccttctttgga 314
           |||||||||||
Sbjct: 214 ccttctttgga 204


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: 16
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: 316
Length of database: 716
Length adjustment: 9
Effective length of query: 307
Effective length of database: 707
Effective search space:   217049
Effective search space used:   217049
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= MSMg01no213_f02.g1 MSMg01no213_f02.g1 CHROMAT_FILE:
MSMg01no213_f02.g1 PHD_FILE: MSMg01no213_f02.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 20:39:19 2005
         (163 letters)



>mm_chr5_54800045_54800607
          Length = 563

 Score =  308 bits (159), Expect = 2e-88
 Identities = 162/163 (99%)
 Strand = Plus / Plus

                                                                       
Query: 1   tgtctcccttgatgcttatagttaaattcttgagatcatcacttttggcttgtaaaatgg 60
           |||||||||||| |||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 201 tgtctcccttgacgcttatagttaaattcttgagatcatcacttttggcttgtaaaatgg 260

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

                                                      
Query: 121 aatgctccaaaagaagggtggcagggcttagggtcaaaaactg 163
           |||||||||||||||||||||||||||||||||||||||||||
Sbjct: 321 aatgctccaaaagaagggtggcagggcttagggtcaaaaactg 363


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: 6
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: 163
Length of database: 563
Length adjustment: 8
Effective length of query: 155
Effective length of database: 555
Effective search space:    86025
Effective search space used:    86025
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)