BAC Information

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BAC

Clone NameMSMg01-428G14
Chromosome13 (Build37)
Map Location 18,545,784 - 18,711,320
singlet/doubletdoublet
Overlap genenone
Upstream gene5033411D12Rik, 2810021B07Rik, Cdc2l5, Rala, LOC434585, LOC382732, 1600012F09Rik, Vdac3-ps1, LOC625310, 4930448F12Rik, Pou6f2
Downstream geneVps41, Amph, LOC624044, Tcrg-V4, LOC624071, Tcrg, Tcrg-C, Stard3nl, Epdr1
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-428G14.T7 (MSMg01no428_g14.b1)MSMg01-428G14.TJ (MSMg01no428_g14.g1)
ACCAG521383AG521384
length741748
length of high quality
(start - end)
276 (325 - 600)498 (74 - 571)
definitionCHROMAT_FILE: MSMg01no428_g14.b1 PHD_FILE: MSMg01no428_g14.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:50:35 2005CHROMAT_FILE: MSMg01no428_g14.g1 PHD_FILE: MSMg01no428_g14.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:50:35 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(18,545,784 - 18,546,059)(18,710,823 - 18,711,320)
sequence
ATCATXXXXXXXXXXXXXXXXXXXXXXXXXXXATCAGAGAGAACCGCGGA
ATTCTTTGGCTGCCATACAACTGACAGAGGATTAATATCCAGAATATATA
AGGAATAAAGAAAAATCAGAGTCAAGAAAACAAACAACCCAATTACTCAA
ATACTCTTATGGTTCTCAATAAGACCTCATGTTTTTCTTTGTGTAGATGT
TACATATTGATAATTCATATCTTTGTATCCTCCAATATGTTATTACTGTT
TTGTGGGATACTATTGCTCCTGTATATTTATCCTGCAGCTGTCCACTTGT
AATAAACTTGCTTATTAATTCTAACATTATGTAGTGGCTGCCTTGGATTG
CCAAGGTGTGTCTAATCATACTGTCATCTCAGAGCCATACTTTTCTCTCC
TTGCTCACTAGTCTTATTGTATTATTTACTGTATTTACCTGAACTTTCAA
ACAATGCTTAATAACAATGGTGATAAGGAAAATTCATCTTTTGTTTGTGA
TTTAGATTGGATTGCCTCCCATGTCTCAGTGAAGTGTGAAGTCCTTTCCT
ACTTTCACATCTACTTCATCAGCTTGGTATATAGTCTGCCATTCTTAGGT
TCTTAGTATTTCAGGACATCTCACTTCTTCATCAAATACTCTCTCATATT
CTGAGAGCAACATTCTTTAAAGTCATAGAATTACTGATTTAATATATTAT
ACTAATGAAGTTACTAGTATTAATAATTATCTTGCACTGAT
CGATGATAGTGGXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXTTGAGATATAGGTTTGATGCTGCTTAT
GAGCACATAGTCTTAAAAAACAAAACAAAACAAAACAACCTTTAAAAACC
TTAATTAAAATTTTTTTGCAATATTCCTTCCTATGAAGTATTGCATATCT
TAGTTCAAACATAGGCAAGATTATTGTTTTATGTGAATTCACTTTTAAGC
ATCCCACATTTGTAATACTTAATGTAATGCTTCCACCATATTCTGTGAAT
GCAAGATAAAAGAAAGTATGTGCTGGGGTGGGTAGGAGGTAGCTGAGGTA
GTGTGAAGGAAACACTTAGGTATTGTGTGGGAATGGAAAACCCTGCTGTG
ATTCACTTCCCTCAGATGCCTTTACACCAGTATAAGACGGGTTAGAACTA
CTCACAGTGTTCGTTTTTATAGTCTATATTGATTAATATTGGTTATGCTA
GAAAAAGTATATCTAATAATATATTTAATTATGCTATATAAATAATGTTC
TTTAGGAAATAACTATTTCTCCTNAAAACAAACCAAAAACCATAACAACC
ACAACAACAGTGAGAAGTATGGCACTGTGTTAAATTTCTATCAGTTCTTG
ATGAATATGTTACCAGAACGCACTTGTAATTCACGTGCCTGCTCTCTCCT
TCCAGTTGGTGCTAAATCATACAATTCATATCCCCCATGGATAATCTN
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no428_g14.b1 MSMg01no428_g14.b1 CHROMAT_FILE:
MSMg01no428_g14.b1 PHD_FILE: MSMg01no428_g14.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 18:50:35 2005
         (276 letters)



>mm_chr13_18545584_18546259
          Length = 676

 Score =  526 bits (272), Expect = e-154
 Identities = 275/276 (99%)
 Strand = Plus / Plus

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

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

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

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

                                               
Query: 241 ttcatcagcttggtatatagtctgccattcttaggt 276
           |||||||||||||||||||||||| |||||||||||
Sbjct: 441 ttcatcagcttggtatatagtctgtcattcttaggt 476


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: 13
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: 276
Length of database: 676
Length adjustment: 9
Effective length of query: 267
Effective length of database: 667
Effective search space:   178089
Effective search space used:   178089
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)
Query= MSMg01no428_g14.g1 MSMg01no428_g14.g1 CHROMAT_FILE:
MSMg01no428_g14.g1 PHD_FILE: MSMg01no428_g14.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 18:50:35 2005
         (498 letters)



>mm_chr13_18710558_18711455
          Length = 898

 Score =  909 bits (470), Expect = 0.0
 Identities = 491/498 (98%)
 Strand = Plus / Minus

                                                                       
Query: 1   ttgagatataggtttgatgctgcttatgagcacatagtcttaaaaaacaaaacaaaacaa 60
           |||||||||||||||||||||||| |||||||||||||||||||||||||||||||||||
Sbjct: 763 ttgagatataggtttgatgctgctcatgagcacatagtcttaaaaaacaaaacaaaacaa 704

                                                                       
Query: 61  aacaacctttaaaaaccttaattaaaatttttttgcaatattccttcctatgaagtattg 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 703 aacaacctttaaaaaccttaattaaaatttttttgcaatattccttcctatgaagtattg 644

                                                                       
Query: 121 catatcttagttcaaacataggcaagattattgttttatgtgaattcacttttaagcatc 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 643 catatcttagttcaaacataggcaagattattgttttatgtgaattcacttttaagcatc 584

                                                                       
Query: 181 ccacatttgtaatacttaatgtaatgcttccaccatattctgtgaatgcaagataaaaga 240
           || |||||||||||||||||||||||||||||||| ||||||||||||||||||||||||
Sbjct: 583 ccgcatttgtaatacttaatgtaatgcttccaccagattctgtgaatgcaagataaaaga 524

                                                                       
Query: 241 aagtatgtgctggggtgggtaggaggtagctgaggtagtgtgaaggaaacacttaggtat 300
           ||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 523 aagtaagtgctggggtgggtaggaggtagctgaggtagtgtgaaggaaacacttaggtat 464

                                                                       
Query: 301 tgtgtgggaatggaaaaccctgctgtgattcacttccctcagatgcctttacaccagtat 360
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 463 tgtgtgggaatggaaaaccctgctgtgattcacttccctcagatgcctttacaccagtat 404

                                                                       
Query: 361 aagacgggttagaactactcacagtgttcgtttttatagtctatattgattaatattggt 420
           |||||||||||||||| |||||||||||||||||||||||||||||||||||||||||||
Sbjct: 403 aagacgggttagaactcctcacagtgttcgtttttatagtctatattgattaatattggt 344

                                                                       
Query: 421 tatgctagaaaaagtatatctaataatatatttaattatgctatataaataatgttcttt 480
           |||| |||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 343 tatgttagaaaaagtatatctaataatatatttaattatgctatataaataatgttcttt 284

                             
Query: 481 aggaaataactatttctc 498
            |||||||||||||||||
Sbjct: 283 gggaaataactatttctc 266


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: 22
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: 498
Length of database: 898
Length adjustment: 10
Effective length of query: 488
Effective length of database: 888
Effective search space:   433344
Effective search space used:   433344
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)