BAC Information

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BAC

Clone NameMSMg01-467N21
Chromosome18 (Build37)
Map Location 38,349,953 - 38,527,714
singlet/doubletdoublet
Overlap genePcdh1, LOC100042583, 1700086O06Rik, 0610009O20Rik, Pcdh12, Rnf14, Gnpda1, LOC240219
Upstream genePcdhb1, Pcdhb2, Pcdhb3, Pcdhb4, Pcdhb5, Pcdhb6, Pcdhb7, Pcdhb8, Pcdhb9, Pcdhb10, Pcdhb11, Pcdhb12, Pcdhb13, Pcdhb14, Pcdhb15, Pcdhb16, Pcdhb17, Pcdhb18, Pcdhb19, Pcdhb20, Pcdhb21, Pcdhb22, Slc25a2, Taf7, EG666693, Pcdhg@, Pcdhga1, Pcdhga2, Pcdhga3, Pcdhgb1, Pcdhga4, Pcdhgb2, Pcdhga5, Pcdhga6, Pcdhga7, Pcdhgb4, Pcdhga8, Pcdhgb5, Pcdhga9, Pcdhgb6, Pcdhga10, Pcdhgb7, Pcdhga11, Pcdhgb8, Pcdhga12, Pcdhgc3, Pcdhgc4, Pcdhgc5, Diap1, Hdac3, 4631403P03Rik, Fchsd1, Centd3
Downstream geneLOC100041839, Ndfip1, Spry4, 9630014M24Rik, LOC100041865, LOC100041875, LOC100042671, LOC666809, LOC100041894, Fgf1, EG545253, Arhgap26
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-467N21.T7 (MSMg01no467_n21.b1)MSMg01-467N21.TJ (MSMg01no467_n21.g1)
ACCAG551473AG551474
length759756
length of high quality
(start - end)		511 (62 - 572)505 (65 - 569)
definitionCHROMAT_FILE: MSMg01no467_n21.b1 PHD_FILE: MSMg01no467_n21.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 19:43:52 2005CHROMAT_FILE: MSMg01no467_n21.g1 PHD_FILE: MSMg01no467_n21.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 19:43:52 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(38,349,953 - 38,350,463)(38,527,210 - 38,527,714)
sequence
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAATTCCACC
TTCATATCGCGGCTGAGGAAACCCCGTTGTCATTTAGAGCCCCTCCCCCG
CCCCTACACAAACACACATAGAGTCGTGGTTATACAAATCTACTCCATCA
GACACCTGTCCCCAGACAAAGACTGCACATACCTTCCAAGTACCCTCAAG
CCTTACATGCTCCCAGCTTCCTCACAACCCCTCCCCACCCGAGCAGAGCA
ATGTTTCACTTTAAAGCCAAGGGGAGAAGGGGAGGAGACGAGCATCTATG
TGGGCTGGTCACACATAAGCACACACACACACAGACACACAACAACAAGC
ATACTCATGCAGCCCCTGCCCACCTCACACCAGCCCCTCACCAGCCACCA
CCCTGGCCTTGCCCCCAGCTCCCTGCCCAGAACACCCACGGGAACAGGAG
TTGGCCGCCTGACATCAGCAGTAGCCAGTGTGGTTGCTGGGCAGCGAGAG
TCTCCATGGGAACGGCTGGGCCATGAGCACTTCCTGTCACAGCTGCCCCT
GGGCCGCCCTCACTCGGGGACAGCAACAGGCGGTGAACCCCCTCATGGAC
ATGACTGAGAAGCTCTGGCCTAGGGCATGGGCTCACCCACCCTATCTTGT
GCTCCTGCCCGTGTAAAGTGAGAAGAGCTTAAGTCTTGTTGGTTACCCTC
CTAAGGCCAAAACCTCGGGAAATCATGTTTTTTGTTAACCCTCCTTGCTC
TTAAAATTN

TXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXAACTCAGGATCTCTGGAAGAGCAGTTGGTGCTCTTA
ACCGCTGAGTCATCTCTCTAGCCCACGAGGGCCATTTTTATTCAAAACCA
TCACACATAGTCAGTTTCTTCTGTGCATTGAATGACACGTGGCAAAAATT
TGCTACCACCCAGTTTAGTTACCTTAAGGACAGGCCCTTTATCTCCCAGC
ATTACATATACCATAGCTATGCTTGGACCAAGCAGGTGTCCAGGAAAATG
AATCTAGTGCTTGTCCCTCACTGGCCCTAATGCCAGCATCTGCAGTCAGA
TCAATGGATATGCCAGGCTGTGTGGTGGGAGGCACGTGCTGAGCAGTCAA
AAATAATTGCTGCCAAGGCCTTGATCCGGAGGAGACACAGGGCATTAGGA
ACGTCACAGGCAGATAGGAGGATATTTCAGGCCCAAAGAGAGCTGAAACC
AACCCCTCAGGTTTGTGAAGCCTTGCCTGCTCTGACAATCTCAGGTAGGT
AGGTGGTAAGGAATGAAGGATGCCGACTTTGTAGTTTGAATTTTCTTGGT
CCTCCTTTGCAAGATGTCCGCGCCCTAGGGAGGGATCCTGGTTGAGATCA
GCACCGCACTGAGCATAGCTGGAGTCGGCCTCGCCCGCCCCGCCTCCCGG
TTCCCGCAGCTCTATGAGTCCCCATAAGCCCTAGAAAGTTCCTTTATGAA
AACTCC
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no467_n21.b1 MSMg01no467_n21.b1 CHROMAT_FILE:
MSMg01no467_n21.b1 PHD_FILE: MSMg01no467_n21.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 19:43:52 2005
         (511 letters)



>mm_chr18_38349753_38350663
          Length = 911

 Score =  973 bits (503), Expect = 0.0
 Identities = 509/511 (99%)
 Strand = Plus / Plus

                                                                       
Query: 1   gctgaggaaaccccgttgtcatttagagcccctcccccgcccctacacaaacacacatag 60
           ||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||
Sbjct: 201 gctgaggaaaccccgttgtcatttagagcccctcccccgcccctacacatacacacatag 260

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

                                                                       
Query: 121 ccttccaagtaccctcaagccttacatgctcccagcttcctcacaacccctccccacccg 180
           ||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||
Sbjct: 321 ccttccaagtaccctcaagccttacatgctcccagcttcctaacaacccctccccacccg 380

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

                                                                       
Query: 241 gggctggtcacacataagcacacacacacacagacacacaacaacaagcatactcatgca 300
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 441 gggctggtcacacataagcacacacacacacagacacacaacaacaagcatactcatgca 500

                                                                       
Query: 301 gcccctgcccacctcacaccagcccctcaccagccaccaccctggccttgcccccagctc 360
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 501 gcccctgcccacctcacaccagcccctcaccagccaccaccctggccttgcccccagctc 560

                                                                       
Query: 361 cctgcccagaacacccacgggaacaggagttggccgcctgacatcagcagtagccagtgt 420
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 561 cctgcccagaacacccacgggaacaggagttggccgcctgacatcagcagtagccagtgt 620

                                                                       
Query: 421 ggttgctgggcagcgagagtctccatgggaacggctgggccatgagcacttcctgtcaca 480
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 621 ggttgctgggcagcgagagtctccatgggaacggctgggccatgagcacttcctgtcaca 680

                                          
Query: 481 gctgcccctgggccgccctcactcggggaca 511
           |||||||||||||||||||||||||||||||
Sbjct: 681 gctgcccctgggccgccctcactcggggaca 711


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: 27
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: 511
Length of database: 911
Length adjustment: 10
Effective length of query: 501
Effective length of database: 901
Effective search space:   451401
Effective search space used:   451401
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= MSMg01no467_n21.g1 MSMg01no467_n21.g1 CHROMAT_FILE:
MSMg01no467_n21.g1 PHD_FILE: MSMg01no467_n21.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 19:43:52 2005
         (505 letters)



>mm_chr18_38526950_38527854
          Length = 905

 Score =  946 bits (489), Expect = 0.0
 Identities = 501/505 (99%)
 Strand = Plus / Minus

                                                                       
Query: 1   aactcaggatctctggaagagcagttggtgctcttaaccgctgagtcatctctctagccc 60
           ||||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||
Sbjct: 765 aactcaggatctctggaagagcagttggtgctcttaaccgctgagccatctctctagccc 706

                                                                       
Query: 61  acgagggccatttttattcaaaaccatcacacatagtcagtttcttctgtgcattgaatg 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 705 acgagggccatttttattcaaaaccatcacacatagtcagtttcttctgtgcattgaatg 646

                                                                       
Query: 121 acacgtggcaaaaatttgctaccacccagtttagttaccttaaggacaggccctttatct 180
           |||| |||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 645 acacctggcaaaaatttgctaccacccagtttagttaccttaaggacaggccctttatct 586

                                                                       
Query: 181 cccagcattacatataccatagctatgcttggaccaagcaggtgtccaggaaaatgaatc 240
           |||||||||||||||||| |||||||||||||||||||||||||||||||||||||||||
Sbjct: 585 cccagcattacatataccgtagctatgcttggaccaagcaggtgtccaggaaaatgaatc 526

                                                                       
Query: 241 tagtgcttgtccctcactggccctaatgccagcatctgcagtcagatcaatggatatgcc 300
           ||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 525 tagtgcttggccctcactggccctaatgccagcatctgcagtcagatcaatggatatgcc 466

                                                                       
Query: 301 aggctgtgtggtgggaggcacgtgctgagcagtcaaaaataattgctgccaaggccttga 360
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 465 aggctgtgtggtgggaggcacgtgctgagcagtcaaaaataattgctgccaaggccttga 406

                                                                       
Query: 361 tccggaggagacacagggcattaggaacgtcacaggcagataggaggatatttcaggccc 420
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 405 tccggaggagacacagggcattaggaacgtcacaggcagataggaggatatttcaggccc 346

                                                                       
Query: 421 aaagagagctgaaaccaacccctcaggtttgtgaagccttgcctgctctgacaatctcag 480
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 345 aaagagagctgaaaccaacccctcaggtttgtgaagccttgcctgctctgacaatctcag 286

                                    
Query: 481 gtaggtaggtggtaaggaatgaagg 505
           |||||||||||||||||||||||||
Sbjct: 285 gtaggtaggtggtaaggaatgaagg 261


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: 505
Length of database: 905
Length adjustment: 10
Effective length of query: 495
Effective length of database: 895
Effective search space:   443025
Effective search space used:   443025
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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