BAC Information

Click to search

BAC

Clone NameMSMg01-512B19
Chromosome9 (Build37)
Map Location 41,350,913 - 41,523,450
singlet/doubletdoublet
Overlap geneLOC100042464, EG667566
Upstream gene9030425E11Rik, LOC100043076, LOC100043071, Hspa8, Bsx, 4931429I11Rik, Crtam, 2810457I06Rik, LOC628495
Downstream gene6720432D03Rik, Sorl1, Sc5d, Tecta, Tbcel, Grik4
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-512B19.T7 (MSMg01no512_b19.b1)MSMg01-512B19.TJ (MSMg01no512_b19.g1)
ACCAG585148AG585149
length776776
length of high quality
(start - end)		624 (37 - 660)556 (67 - 622)
definitionCHROMAT_FILE: MSMg01no512_b19.b1 PHD_FILE: MSMg01no512_b19.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 20:42:09 2005CHROMAT_FILE: MSMg01no512_b19.g1 PHD_FILE: MSMg01no512_b19.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 20:42:09 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(41,350,913 - 41,351,533)(41,523,053 - 41,523,450)
sequence
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAATTCCAGA
CTGGAGCAGCTCATGTTCTATGATGAGGCTGAACCACTGCAGCGATAGGA
TACTTCCATCCAGTGTGGACATGCCTCATGGAGACATGATGGTGTTCGCA
GTTATGTGTTCTCTAAACTCTAAGTGGCTGGGAGTCTTAACTTATTTGTT
CATTATTATGCAATTAGGTGCTGCTGATATGGCAAAACCTATATGAAAAC
CACAATAAATCAAGCAAGATCAAAGGATTTCAGAGATGATGAGATATCTC
GGTTTTGCACAAATCAAACAGCCTGAGACTAATCTCCTGATGGTATAGTG
GAAAGACAGAGCTGTGACTCCTGGTAGGGTTCTCCTGATAGGCTCTGTCT
TTTAGTCTCTGTCTCTGATCCCCCACTCTGTGTTTGTGTTTGTGTCTTTC
TATGCCACTCTTTTTCTGTTGCTCTCTCACACAACACATATACATAACCA
CACATAAAATAATAACATTTTAATTTAAGGAAAGCATATCCCTGAACACT
AGACAGAAAGGTTAAAAAAAATTCCTGGAAATAAACTTTTTATCGTCTGC
CATGCCTAAAATACAAAGATTTCGGGTAATCATTTTACTAGAATGTCCCT
ATATGAGGTGTACGGGTGACAACCTGTGCTGGTTGGTTTTGTGTCAACTT
AACTCAAGCTAGAATCATCTGAGAAGAGGGAGCCCTCACTGAGAAAATGC
TTTCTATAGATTAGGCTGTATACAAG

XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXTTTTCCTTTCCTTTTTTTGATTCACTTGCTTTGA
AAGGAGCCAGCTGTGATGTCATGAGCCACCCTAGGGAGTTGACAGACAGT
TGCTATGGTGTGAAGACATCTAGGAAGCCAACAAGGAAGTTCTGTGAAGC
TTTCTAGCCAGTGTGTGGCTGAGCTTGGAAGTGGACTGCCTCCCAAGTGA
GTTTGTAGATAACTGCAAGCCCAGCCAACAACTTGACTTTAATCCTCAAA
CACACCCCAATCCTGAGTCAAGTAAACTGCTCCTGGATTTCAGAACCACA
GGATCTGTGAAATGCTAAAGCATTTCCGGTTCTAGTCCTCTGGATTGGTA
ATAATTTATTGCAGAGAAATAGATTAGTGAGGTAAAGTATTTTCTTTTAT
GTTCTAACTCCTTTGCTGTCATGGGAATCTTTGGACTTTCCACTATGAGC
ATTTAGAGATTAGCAAATTGTCCTATAGCATTTCTCAGCATGCCCCTCAG
AGCTGGCATTCAGTGTTGGCTATGGGCTCAGCAACTGTGTGCTCAGTTCC
TGGAAGCATGTGTAAGTACAGCAGCCAGATGCACATAGAACCTGTTTCTC
TTCCTTCTGCATAGACTCATCCTTAGAGAAGAGAGGTGCTGGCTTTTGCC
ACTGGGTAGGTGTGTCCTCTGGGATGTCACTGCATTCTTACAGAACAGCA
TGCTTTTCTACTTTTTGCCCTATGTC
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no512_b19.b1 MSMg01no512_b19.b1 CHROMAT_FILE:
MSMg01no512_b19.b1 PHD_FILE: MSMg01no512_b19.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 20:42:09 2005
         (624 letters)



>mm_chr9_41350710_41351733
          Length = 1024

 Score = 1201 bits (621), Expect = 0.0
 Identities = 621/621 (100%)
 Strand = Plus / Plus

                                                                       
Query: 4   ggaattccagactggagcagctcatgttctatgatgaggctgaaccactgcagcgatagg 63
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 204 ggaattccagactggagcagctcatgttctatgatgaggctgaaccactgcagcgatagg 263

                                                                       
Query: 64  atacttccatccagtgtggacatgcctcatggagacatgatggtgttcgcagttatgtgt 123
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 264 atacttccatccagtgtggacatgcctcatggagacatgatggtgttcgcagttatgtgt 323

                                                                       
Query: 124 tctctaaactctaagtggctgggagtcttaacttatttgttcattattatgcaattaggt 183
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 324 tctctaaactctaagtggctgggagtcttaacttatttgttcattattatgcaattaggt 383

                                                                       
Query: 184 gctgctgatatggcaaaacctatatgaaaaccacaataaatcaagcaagatcaaaggatt 243
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 384 gctgctgatatggcaaaacctatatgaaaaccacaataaatcaagcaagatcaaaggatt 443

                                                                       
Query: 244 tcagagatgatgagatatctcggttttgcacaaatcaaacagcctgagactaatctcctg 303
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 444 tcagagatgatgagatatctcggttttgcacaaatcaaacagcctgagactaatctcctg 503

                                                                       
Query: 304 atggtatagtggaaagacagagctgtgactcctggtagggttctcctgataggctctgtc 363
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 504 atggtatagtggaaagacagagctgtgactcctggtagggttctcctgataggctctgtc 563

                                                                       
Query: 364 ttttagtctctgtctctgatcccccactctgtgtttgtgtttgtgtctttctatgccact 423
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 564 ttttagtctctgtctctgatcccccactctgtgtttgtgtttgtgtctttctatgccact 623

                                                                       
Query: 424 ctttttctgttgctctctcacacaacacatatacataaccacacataaaataataacatt 483
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 624 ctttttctgttgctctctcacacaacacatatacataaccacacataaaataataacatt 683

                                                                       
Query: 484 ttaatttaaggaaagcatatccctgaacactagacagaaaggttaaaaaaaattcctgga 543
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 684 ttaatttaaggaaagcatatccctgaacactagacagaaaggttaaaaaaaattcctgga 743

                                                                       
Query: 544 aataaactttttatcgtctgccatgcctaaaatacaaagatttcgggtaatcattttact 603
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 744 aataaactttttatcgtctgccatgcctaaaatacaaagatttcgggtaatcattttact 803

                                
Query: 604 agaatgtccctatatgaggtg 624
           |||||||||||||||||||||
Sbjct: 804 agaatgtccctatatgaggtg 824


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: 30
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: 624
Length of database: 1024
Length adjustment: 10
Effective length of query: 614
Effective length of database: 1014
Effective search space:   622596
Effective search space used:   622596
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= MSMg01no512_b19.g1 MSMg01no512_b19.g1 CHROMAT_FILE:
MSMg01no512_b19.g1 PHD_FILE: MSMg01no512_b19.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 20:42:09 2005
         (556 letters)



>mm_chr9_41522495_41523450
          Length = 956

 Score =  770 bits (398), Expect = 0.0
 Identities = 398/398 (100%)
 Strand = Plus / Minus

                                                                       
Query: 159 ttggaagtggactgcctcccaagtgagtttgtagataactgcaagcccagccaacaactt 218
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 956 ttggaagtggactgcctcccaagtgagtttgtagataactgcaagcccagccaacaactt 897

                                                                       
Query: 219 gactttaatcctcaaacacaccccaatcctgagtcaagtaaactgctcctggatttcaga 278
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 896 gactttaatcctcaaacacaccccaatcctgagtcaagtaaactgctcctggatttcaga 837

                                                                       
Query: 279 accacaggatctgtgaaatgctaaagcatttccggttctagtcctctggattggtaataa 338
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 836 accacaggatctgtgaaatgctaaagcatttccggttctagtcctctggattggtaataa 777

                                                                       
Query: 339 tttattgcagagaaatagattagtgaggtaaagtattttcttttatgttctaactccttt 398
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 776 tttattgcagagaaatagattagtgaggtaaagtattttcttttatgttctaactccttt 717

                                                                       
Query: 399 gctgtcatgggaatctttggactttccactatgagcatttagagattagcaaattgtcct 458
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 716 gctgtcatgggaatctttggactttccactatgagcatttagagattagcaaattgtcct 657

                                                                       
Query: 459 atagcatttctcagcatgcccctcagagctggcattcagtgttggctatgggctcagcaa 518
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 656 atagcatttctcagcatgcccctcagagctggcattcagtgttggctatgggctcagcaa 597

                                                 
Query: 519 ctgtgtgctcagttcctggaagcatgtgtaagtacagc 556
           ||||||||||||||||||||||||||||||||||||||
Sbjct: 596 ctgtgtgctcagttcctggaagcatgtgtaagtacagc 559


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: 23
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: 556
Length of database: 956
Length adjustment: 10
Effective length of query: 546
Effective length of database: 946
Effective search space:   516516
Effective search space used:   516516
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)


| Home | SequenceCutter | Blast | Download |