BAC Information

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BAC

Clone NameMSMg01-389E09
Chromosome18 (Build37)
Map Location 47,385,412 - 47,570,512
singlet/doubletdoublet
Overlap geneSema6a
Upstream genePggt1b, Ccdc112, EG225468, LOC100042916, Mospd4, LOC100042204, Fem1c, Ticam2, Eif1a, LOC100042226, Cdo1, Atg12, Ap3s1, LOC100042950, 4833403I15Rik, LOC666798, Gm949, LOC100042241, Commd10, EG628438, LOC667120
Downstream geneLOC628477, 9130209A04Rik, A730092B10, LOC383325, LOC100042982, LOC100042284, LOC100042301, EG433182, LOC383326, LOC100042323
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-389E09.T7 (MSMg01no389_e09.b1)MSMg01-389E09.TJ (MSMg01no389_e09.g1)
ACCAG491569AG491570
length743752
length of high quality
(start - end)
240 (241 - 480)375 (78 - 452)
definitionCHROMAT_FILE: MSMg01no389_e09.b1 PHD_FILE: MSMg01no389_e09.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 23:32:49 2005CHROMAT_FILE: MSMg01no389_e09.g1 PHD_FILE: MSMg01no389_e09.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 23:32:49 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(47,570,273 - 47,570,512)(47,385,412 - 47,385,786)
sequence
CCCCCTCCCCTCCTAATTTGGNGGCGGTXXXXXXXXXXXXXXXXXXXXXX
XXXXCGCGGAATTCCAGGATTGCCAGAGCTATACAGAGAAACCCTGTCTC
CAAAAAGAAAAGACAAGAAAAGAATAGAAGAGAAGAGAAGAGAAGAGAAG
AGAAGAGCAGAGAAGAGAAGAGAAGAGAAGAGAAGAGAAGAGAAGAGAAG
AGAAGAGAAGAGAAGAGAAAAAAGAAAACCTACAACAACCAAAAGAAGAT
CATCTAAGAGAATATATTGTGATTAAGAAGGAATTAAAAGGAAGGAAGGA
AAGAAAGAAAAAAGAAAAGGAGGAAGGAAGGGGAGATTACAGAGAGAAAG
GAAGAAAAGTTTTACTAATAACTATAGCAAACACTACCCGTTGCTCACTG
TACTCCCAGCAGTGCCCTAGCCAGATGGCTGATTAACTCACACTTCATAA
TATCTTATAATAATGTTTTATTTATTCCCATGCCAGGGTGTGAAGAAGAT
GGAGTTGTCACAGTAAGCCACATCCTAGTACCTTGGGTAATAAGATCATA
AGGCTCCGCCCCCCAGGCCTGATTCCAGGGTGAGCATCCCAATGCTTTTG
TTGCCTTTTGGGCCCTTTCCGGCTAGTGGTAGCCGACCCCCACTGATATT
AGGCTTTCCTTTGGGGATGTCCCGTTGCCCCCCCCCCAGGTTCGCCGCCC
CACCTTGCGTGCCGCCCTCCTTCTCCCTGGGGATCTCTCCTGG
NTTTCGATGATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXTTCCCGCAAACATCACTCGCTTGTAAATCACTACAGT
TTTTAGAAGCACGGTAGTGACATAAATGTACCTATTGATCAGTAGATAGA
ATAAGAAGGAAGAAAAGTCTAAGAAGGTCTTCATGGTATACCAGATGATC
TCCTTTAGGGCTCATGCGCAGGAGCAAGATCATTCTCAGTAAGCCGGAGT
AGTATTGTCCAAAAGGGATGGTTTTATCCCCAGGGGTCATTTGGACGTGC
GTCCTGGACAGTGTTTTTGTTTCCATAATTTGGAAGCAGGTGCTACTGAA
CATAATGAACAGATATGACAGGATGTTGCTAACGTTTTGTGATGCACAGG
GTGGTTGGCACAACAAAGAGTCGGCCGTTTCCAACGTCAATAACAATGAG
GTTGAGAAACCATGACATAAAGGCCTGAATATGGGATGTAGACCTTGCTC
AGTACTGACAGCTTAATGAAGCGAGGTTAGGGTCTGACCTGGCACAGATG
ATTCTGGACCCCTTTCTCTAACTCTAGACCTGCACCTGACCGAACACAAT
TTATTGCGCATTTTCCACACCCTTGCCACCTTATTTTGTTCCCTCACTTT
CCCCCCCTTGATTTTTTTTTTTTTCCCTTGTCCGCCAATGGCTCTCTAAA
CCCTCACGCCCCTTTGCCCCCCCCTTTCCTTCTCCCTCCCCCCCCCTGTT
TC
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no389_e09.b1 MSMg01no389_e09.b1 CHROMAT_FILE:
MSMg01no389_e09.b1 PHD_FILE: MSMg01no389_e09.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 23:32:49 2005
         (240 letters)



>mm_chr18_47569982_47570621
          Length = 640

 Score =  449 bits (232), Expect = e-131
 Identities = 238/240 (99%)
 Strand = Plus / Minus

                                                                       
Query: 1   aaaagaagatcatctaagagaatatattgtgattaagaaggaattaaaaggaaggaagga 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 531 aaaagaagatcatctaagagaatatattgtgattaagaaggaattaaaaggaaggaagga 472

                                                                       
Query: 61  aagaaagaaaaaagaaaaggaggaaggaaggggagattacagagagaaaggaagaaaagt 120
           ||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||
Sbjct: 471 aagaaagaaaaaagaaaaggaggaaggaaggggagataacagagagaaaggaagaaaagt 412

                                                                       
Query: 121 tttactaataactatagcaaacactacccgttgctcactgtactcccagcagtgccctag 180
           ||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||
Sbjct: 411 tttactaataactatagcaaacactacccgttgctcactgtacacccagcagtgccctag 352

                                                                       
Query: 181 ccagatggctgattaactcacacttcataatatcttataataatgttttatttattccca 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 351 ccagatggctgattaactcacacttcataatatcttataataatgttttatttattccca 292


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: 14
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: 240
Length of database: 640
Length adjustment: 9
Effective length of query: 231
Effective length of database: 631
Effective search space:   145761
Effective search space used:   145761
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= MSMg01no389_e09.g1 MSMg01no389_e09.g1 CHROMAT_FILE:
MSMg01no389_e09.g1 PHD_FILE: MSMg01no389_e09.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 23:32:49 2005
         (375 letters)



>mm_chr18_47385212_47385986
          Length = 775

 Score =  617 bits (319), Expect = 0.0
 Identities = 361/375 (96%)
 Strand = Plus / Plus

                                                                       
Query: 1   actcgcttgtaaatcactacagtttttagaagcacggtagtgacataaatgtacctattg 60
           ||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||
Sbjct: 201 actcgcttgtaaatcactacagtttttagaagcacggtattgacataaatgtacctattg 260

                                                                       
Query: 61  atcagtagatagaataagaaggaagaaaagtctaagaaggtcttcatggtataccagatg 120
           |||||||||||||||||||||||||||| ||||||||| ||||| |||||||||||||||
Sbjct: 261 atcagtagatagaataagaaggaagaaaggtctaagaaagtctttatggtataccagatg 320

                                                                       
Query: 121 atctcctttagggctcatgcgcaggagcaagatcattctcagtaagccggagtagtattg 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||
Sbjct: 321 atctcctttagggctcatgcgcaggagcaagatcattctcagtaagccggagtagtagtg 380

                                                                       
Query: 181 tccaaaagggatggttttatccccaggggtcatttggacgtgcgtcctggacagtgtttt 240
           ||||| |||||||||||||||||||||||||||||||||| || ||||||||||||||||
Sbjct: 381 tccaacagggatggttttatccccaggggtcatttggacgagcatcctggacagtgtttt 440

                                                                       
Query: 241 tgtttccataatttggaagcaggtgctactgaacataatgaacagatatgacaggatgtt 300
           |||  ||| || |||||||||||||||||||||||||| ||||||| |||||||||||||
Sbjct: 441 tgtagccacaacttggaagcaggtgctactgaacataacgaacagagatgacaggatgtt 500

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

                          
Query: 361 caataacaatgaggt 375
           |||||||||||||||
Sbjct: 561 caataacaatgaggt 575


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: 375
Length of database: 775
Length adjustment: 9
Effective length of query: 366
Effective length of database: 766
Effective search space:   280356
Effective search space used:   280356
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)