BAC Information

Click to search

BAC

Clone NameMSMg01-380L13
Chromosome4 (Build37)
Map Location 12,448,640 - 12,582,154
singlet/doubletdoublet
Overlap genenone
Upstream gene1110037F02Rik, LOC100039847, E130016E03Rik, LOC100039862, Gem, Cdh17, Ppm2c, Tmem67, C430048L16Rik, LOC230010, LOC623671, LOC100039958, Rbm12b, 6720467C03Rik, LOC545592
Downstream geneOTTMUSG00000004461, LOC100039988
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-380L13.T7 (MSMg01no380_l13.b1)MSMg01-380L13.TJ (MSMg01no380_l13.g1)
ACCAG485030AG485031
length727743
length of high quality
(start - end)		585 (67 - 651)554 (67 - 620)
definitionCHROMAT_FILE: MSMg01no380_l13.b1 PHD_FILE: MSMg01no380_l13.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 23:21:52 2005CHROMAT_FILE: MSMg01no380_l13.g1 PHD_FILE: MSMg01no380_l13.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 23:21:52 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(12,448,640 - 12,449,224)(12,581,809 - 12,582,154)
sequence
ATXXXXXXXXXXXXXXXXXXXXXXXXXXXXTTTCAGAGGATCCGCGGAAT
TCTCAGTCCTTGCCTTTAGTCAGCACTCACTGTGGAAGGAGCTACAACAA
CATGACAAGCTTGCTACAAACCCCCAAATTAATTATGCTATCCAGTAGAG
GGTAGCCCGGGAGTGTATTTCCGGAGGTGTGTACCTGGGGTCAGAAGAGA
GCCTCCCCCCACCCCCAGAAATTGGTGATTCTAATGAGATGTCAAAACAA
AGTCACTAGGCCAAAACAAGTTTGAGAAATGACTCCTTTATCTTATCCCA
AAGCTTAGACTTTCCACTTCCTTGTCTTCATTTGTTCAACCTTTACCTTT
TAAAGTACCTTGTTCTGACTCTGTTCCTCTGTTAGATTTCTGCTGATACT
TAGTTGCCAAAGTGCCAGCACTAGAAAGTGGGTGGCAAGTCAGGAGATGG
CGGCGTCCACATGAGTGCAATTATTCTCCTTAAGGAAGAGGTGCAAAGAA
CAGCCTTGTCCCTCCAACTGCAAGGACACAATAGAGGCCACACCCTCCCC
CATGCTAAATTTGCTGGCACCTTGATTTTGGATTTCCCAGTTTCTAGGAA
TCTGAGTCCATTTATGTCCCTTAGAAATTATCCAGTGTAAGGAATTTTGG
TGTGGGGTCCCCATTGAAATAAAACCTTTGCTTGAGACAAGTATTATGTA
GGCTGAATATTTATTGCTGCTTAAAAA

AGTXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXTCTCTCTTCTGTCACCACAGGCAGAAAGAGACAT
TGGAGGAGCACTCCACTAATCCTTTTGACTTCTATACCACAGCAAAGGCA
GACTTGGGACAACTGAGACTTAGAAGGTGATGGCCTCAGCCATATAAAGA
ACACTCACACTCAATCAATTTTAATTTTGAAATACTGAGGTTTTAAAAGA
AGTTGGAAAATATAATACAGAAAAATTTCCTCATCCCATTGCCCGTATTG
GAAACACCTTGTACAGTCATGATATCACAGCCAGGAATCTTGACAGGGAT
GCAAAGGAGCATATAAAATCTGTCCATCAGCACAGGGTGCCTCATGTCAC
CATTCTATAGTGACACCCACGTCATCCTCCCATGTCAGCTCACATCACTG
CTAATCTGCTCGTCTCTTCTATAATTCTTTTTAATTTTTGAATATTATAT
AGGGTCTGGAGAGATGGCTCAGTAAGTAAGAGTGCTTGCTGGCAAAGAAT
GTGGACATCGGTTCAAATCCACAAAAGCCACATAAAACACCAAGCATGGT
CACTTATGCCTGTAATCCACTGTGCATGGTACAGAGGTGACAGCATCCCT
GGGTTTTACTGTTGCTCAGTTTAGCTCCAGATTTAGTGACAGGTCATGTC
TCAAAGCCTAACACTAANAGGAATAACTAAAACAAATTGAGAC
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no380_l13.b1 MSMg01no380_l13.b1 CHROMAT_FILE:
MSMg01no380_l13.b1 PHD_FILE: MSMg01no380_l13.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 23:21:52 2005
         (585 letters)



>mm_chr4_12448440_12449424
          Length = 985

 Score = 1116 bits (577), Expect = 0.0
 Identities = 583/585 (99%)
 Strand = Plus / Plus

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

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

                                                                       
Query: 121 ggggtcagaagagagcctccccccacccccagaaattggtgattctaatgagatgtcaaa 180
           ||||||||||||||||||||||||||||||||||| ||||||||||||||||||| ||||
Sbjct: 321 ggggtcagaagagagcctccccccacccccagaaactggtgattctaatgagatgccaaa 380

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

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

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

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

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

                                                                       
Query: 481 cccccatgctaaatttgctggcaccttgattttggatttcccagtttctaggaatctgag 540
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 681 cccccatgctaaatttgctggcaccttgattttggatttcccagtttctaggaatctgag 740

                                                        
Query: 541 tccatttatgtcccttagaaattatccagtgtaaggaattttggt 585
           |||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 741 tccatttatgtcccttagaaattatccagtgtaaggaattttggt 785


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: 29
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: 585
Length of database: 985
Length adjustment: 10
Effective length of query: 575
Effective length of database: 975
Effective search space:   560625
Effective search space used:   560625
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= MSMg01no380_l13.g1 MSMg01no380_l13.g1 CHROMAT_FILE:
MSMg01no380_l13.g1 PHD_FILE: MSMg01no380_l13.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 23:21:52 2005
         (554 letters)



>mm_chr4_12581809_12582762
          Length = 954

 Score =  638 bits (330), Expect = 0.0
 Identities = 342/346 (98%)
 Strand = Plus / Minus

                                                                       
Query: 1   tctctcttctgtcaccacaggcagaaagagacattggaggagcactccactaatcctttt 60
           |||||| ||||||||||||||| ||||||||||||||||||||| |||||||||||||||
Sbjct: 346 tctctcctctgtcaccacaggctgaaagagacattggaggagcagtccactaatcctttt 287

                                                                       
Query: 61  gacttctataccacagcaaaggcagacttgggacaactgagacttagaaggtgatggcct 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 286 gacttctataccacagcaaaggcagacttgggacaactgagacttagaaggtgatggcct 227

                                                                       
Query: 121 cagccatataaagaacactcacactcaatcaattttaattttgaaatactgaggttttaa 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 226 cagccatataaagaacactcacactcaatcaattttaattttgaaatactgaggttttaa 167

                                                                       
Query: 181 aagaagttggaaaatataatacagaaaaatttcctcatcccattgcccgtattggaaaca 240
           |||||||||||||||||||||||| |||||||||||||||||||||||||||||||||||
Sbjct: 166 aagaagttggaaaatataatacaggaaaatttcctcatcccattgcccgtattggaaaca 107

                                                                       
Query: 241 ccttgtacagtcatgatatcacagccaggaatcttgacagggatgcaaaggagcatataa 300
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 106 ccttgtacagtcatgatatcacagccaggaatcttgacagggatgcaaaggagcatataa 47

                                                         
Query: 301 aatctgtccatcagcacagggtgcctcatgtcaccattctatagtg 346
           ||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 46  aatctgtccatcagcacagggtgcctcatgtcaccattctatagtg 1


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: 17
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: 554
Length of database: 954
Length adjustment: 10
Effective length of query: 544
Effective length of database: 944
Effective search space:   513536
Effective search space used:   513536
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 |