BAC Information

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BAC

Clone NameMSMg01-480J02
Chromosome5 (Build37)
Map Location 17,072,762 - 17,270,549
singlet/doubletdoublet
Overlap geneSema3c
Upstream geneHgf, EG668131, LOC626390, LOC668142, LOC100041749, LOC100041832, Speer4f, EG630927
Downstream geneCd36, Gnat3, Gnai1, LOC100041818, LOC668167
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-480J02.T7 (MSMg01no480_j02.b1)MSMg01-480J02.TJ (MSMg01no480_j02.g1)
ACCAG561178AG561179
length733729
length of high quality
(start - end)		679 (50 - 728)584 (79 - 662)
definitionCHROMAT_FILE: MSMg01no480_j02.b1 PHD_FILE: MSMg01no480_j02.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 20:00:54 2005CHROMAT_FILE: MSMg01no480_j02.g1 PHD_FILE: MSMg01no480_j02.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 20:00:55 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(17,072,762 - 17,073,436)(17,269,966 - 17,270,549)
sequence
NACTCXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXC
GCGGAATTCTTTTTAAATGCCAATTAAAAATCATTGATTATTAATATATT
AGATAATTGCACTTTTTATATGAGTTCTTTTGAGTAACCTATATCTATCT
AAAAATTAAGTAAAGAAATAAAATGATGAGTGACCTTTATAATTTAATCA
ATTAAATGTAAACATAAAATTAATAAAATTTCAGGCCTTAGAAGATTGTA
TCTTATTAAGATTCTAGTAAAATAAACTTAAAATGAAACAAACTAAACTT
AAGTATGAGAATAAATAAGAACATATTCAATTTCTAGAATGGATAACTAG
TTTTCTCTTTATTTTATAAATTTTTATAAAATATTTTTAAAATTGTAATC
TGAGAAATCAAGAATATTTTTAGAATTTTAGCTTTAAAAATATTTCAGCG
AAGAATTTAAAAATTAACTCATACCATTTGTGTTTTTAGTAATTGATTGC
CAGCTATTAAAAAGTTCTTGAAGTTTGTTCAAAACAAATATAAACTTCAA
GTGTGTTCTAAAGGTGGAAATACCAACTAAATACCTTTGGTGACAAAATT
GTGACCCTCAAAAACATATTACCTAAAATGTCTCTCCTAATCTGCATTTG
TCGAATTGCCCTACTATAAAAGACAACAAAATATTTGATTTAGGTTTCAA
AAGTCCACAAAACATCCTTTAAACAAATGTTTA

NCCCAATAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXAGCACTCATCTGCCTTCTATAA
TTTAACAATTATGCAATCACTCTCTCACTTTGTTTTTTATTAGATAAGCT
ACTTCTCCCAACTAGCACCATGTGAACGTATGCAGGTCATTTTCCACAGG
GGGCCTATAGTGACTTTAGAATATGTATGTGGTTTTTGCTATTTCCATCC
AGGAAGGGATCCTGCTTTTCCCTCTGTATGTGTTGGCTTCAATAATTAAT
TTAAGAGCATGTGCTGAATTGATAACCGCTTTATACAGGTCAAATCCGAT
AATATAGCTTTGTCTTTCTGTTAAAACATGACAATTTGGACCTTGAGGTC
ATCGTAAGATCAGCTTGGCTACATTCTGTGAAAGACAACATAGAGAGAGG
AAAATGACTACAGTTTCATAATACCTCCATTCCCAACTAAGAGATGAGTC
CTCCATCTTCCTCAATATGAAGGTGAAGCGGGGCTTTTTGGATGGTTCCA
GTCTCAGTCATCATCCTGCTGTCACAGAGATCTGAAATAGTTTGTACTAC
TGGGTAACACTATTAAATATCTTAGAGGGCCATTCTTGCAAAACTGCATT
TCCAACCTGAAGGCTGGAGGTCTGAGATAAAGGTGTAGTAATAGCCACGT
TCTGCTGTAGGTTGTCTTCCTGAATTATG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no480_j02.b1 MSMg01no480_j02.b1 CHROMAT_FILE:
MSMg01no480_j02.b1 PHD_FILE: MSMg01no480_j02.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 20:00:54 2005
         (679 letters)



>mm_chr5_17072558_17073636
          Length = 1079

 Score = 1266 bits (655), Expect = 0.0
 Identities = 670/675 (99%)
 Strand = Plus / Plus

                                                                       
Query: 5   gaattctttttaaatgccaattaaaaatcattgattattaatatattagataattgcact 64
           |||||||||||||| | ||||| |||||||||||||||||||||||||||||||||||||
Sbjct: 205 gaattctttttaaaggacaatttaaaatcattgattattaatatattagataattgcact 264

                                                                       
Query: 65  ttttatatgagttcttttgagtaacctatatctatctaaaaattaagtaaagaaataaaa 124
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 265 ttttatatgagttcttttgagtaacctatatctatctaaaaattaagtaaagaaataaaa 324

                                                                       
Query: 125 tgatgagtgacctttataatttaatcaattaaatgtaaacataaaattaataaaatttca 184
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 325 tgatgagtgacctttataatttaatcaattaaatgtaaacataaaattaataaaatttca 384

                                                                       
Query: 185 ggccttagaagattgtatcttattaagattctagtaaaataaacttaaaatgaaacaaac 244
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 385 ggccttagaagattgtatcttattaagattctagtaaaataaacttaaaatgaaacaaac 444

                                                                       
Query: 245 taaacttaagtatgagaataaataagaacatattcaatttctagaatggataactagttt 304
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 445 taaacttaagtatgagaataaataagaacatattcaatttctagaatggataactagttt 504

                                                                       
Query: 305 tctctttattttataaatttttataaaatatttttaaaattgtaatctgagaaatcaaga 364
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 505 tctctttattttataaatttttataaaatatttttaaaattgtaatctgagaaatcaaga 564

                                                                       
Query: 365 atatttttagaattttagctttaaaaatatttcagcgaagaatttaaaaattaactcata 424
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 565 atatttttagaattttagctttaaaaatatttcagcgaagaatttaaaaattaactcata 624

                                                                       
Query: 425 ccatttgtgtttttagtaattgattgccagctattaaaaagttcttgaagtttgttcaaa 484
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 625 ccatttgtgtttttagtaattgattgccagctattaaaaagttcttgaagtttgttcaaa 684

                                                                       
Query: 485 acaaatataaacttcaagtgtgttctaaaggtggaaataccaactaaatacctttggtga 544
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 685 acaaatataaacttcaagtgtgttctaaaggtggaaataccaactaaatacctttggtga 744

                                                                       
Query: 545 caaaattgtgaccctcaaaaacatattacctaaaatgtctctcctaatctgcatttgtcg 604
           ||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||
Sbjct: 745 caaaattgtgaccctcaaaaacatattacctaagatgtctctcctaatctgcatttgtcg 804

                                                                       
Query: 605 aattgccctactataaaagacaacaaaatatttgatttaggtttcaaaagtccacaaaac 664
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 805 aattgccctactataaaagacaacaaaatatttgatttaggtttcaaaagtccacaaaac 864

                          
Query: 665 atcctttaaacaaat 679
           || ||||||||||||
Sbjct: 865 attctttaaacaaat 879


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: 45
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: 679
Length of database: 1079
Length adjustment: 10
Effective length of query: 669
Effective length of database: 1069
Effective search space:   715161
Effective search space used:   715161
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= MSMg01no480_j02.g1 MSMg01no480_j02.g1 CHROMAT_FILE:
MSMg01no480_j02.g1 PHD_FILE: MSMg01no480_j02.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 20:00:55 2005
         (584 letters)



>mm_chr5_17269766_17270749
          Length = 984

 Score = 1091 bits (564), Expect = 0.0
 Identities = 579/584 (99%)
 Strand = Plus / Minus

                                                                       
Query: 1   agcactcatctgccttctataatttaacaattatgcaatcactctctcactttgtttttt 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 784 agcactcatctgccttctataatttaacaattatgcaatcactctctcactttgtttttt 725

                                                                       
Query: 61  attagataagctacttctcccaactagcaccatgtgaacgtatgcaggtcattttccaca 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 724 attagataagctacttctcccaactagcaccatgtgaacgtatgcaggtcattttccaca 665

                                                                       
Query: 121 gggggcctatagtgactttagaatatgtatgtggtttttgctatttccatccaggaaggg 180
           |||||||||||||| |||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 664 gggggcctatagtggctttagaatatgtatgtggtttttgctatttccatccaggaaggg 605

                                                                       
Query: 181 atcctgcttttccctctgtatgtgttggcttcaataattaatttaagagcatgtgctgaa 240
           |||||| || ||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 604 atcctggttctccctctgtatgtgttggcttcaataattaatttaagagcatgtgctgaa 545

                                                                       
Query: 241 ttgataaccgctttatacaggtcaaatccgataatatagctttgtctttctgttaaaaca 300
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 544 ttgataaccgctttatacaggtcaaatccgataatatagctttgtctttctgttaaaaca 485

                                                                       
Query: 301 tgacaatttggaccttgaggtcatcgtaagatcagcttggctacattctgtgaaagacaa 360
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 484 tgacaatttggaccttgaggtcatcgtaagatcagcttggctacattctgtgaaagacaa 425

                                                                       
Query: 361 catagagagaggaaaatgactacagtttcataatacctccattcccaactaagagatgag 420
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 424 catagagagaggaaaatgactacagtttcataatacctccattcccaactaagagatgag 365

                                                                       
Query: 421 tcctccatcttcctcaatatgaaggtgaagcggggctttttggatggttccagtctcagt 480
           |||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||
Sbjct: 364 tcctccatcttcctcaatatgaaggtgaaggggggctttttggatggttccagtctcagt 305

                                                                       
Query: 481 catcatcctgctgtcacagagatctgaaatagtttgtactactgggtaacactattaaat 540
           ||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||
Sbjct: 304 catcatcctgctgtcacagagatttgaaatagtttgtactactgggtaacactattaaat 245

                                                       
Query: 541 atcttagagggccattcttgcaaaactgcatttccaacctgaag 584
           ||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 244 atcttagagggccattcttgcaaaactgcatttccaacctgaag 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: 26
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: 584
Length of database: 984
Length adjustment: 10
Effective length of query: 574
Effective length of database: 974
Effective search space:   559076
Effective search space used:   559076
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)


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