PDF Help

At5g60540 SYNGENTA 85146

Genomic Sequence (from TAIR)

aaaaaacacattatgagtttttgaaaacctacctttactataagtttttttttgtgtgtatatataatattatatcatcatctttaaaattttgtaaaat
agattacaatttttcctagagaatttgaattataatcacataaaagcttaataagtgtatatttttgttttgttagcataattgtttatggctttttaat
tgaatttgttcacaatagttattaataccgtgatatctttatatttaaaaatgttattataagaaaatatctgaatagaaatccaaatcgtgggcaaaga
aagaaacacaaaacaaaatcgtcgatggctgttacaaaaaggcttttgtgagtgtcccaattccattcacaaagttttagtgtttaataatatctgacac
tctctttctttgaccgtcgccgccgcaATGACCGTCGGAGTTTTAGCTTTGCAAGGTTCTTTCAATGAGCACATCGCGGCTCTGCGGCGGCTCGGTGTCC
AAGGCGTCGAGATTAGGAAGGCTGACCAGCTTCTCACCGTTTCTTCTCTTATCATTCCTGGCGGCGAGAGCACCACCATGGCCAAACTCGCCGAGTATCA
TAACTTGgtccgctcctctctctctagaatctaaagttattgtttgcgaggacccacttgaagaaactagttaaaggttccttttttatgtgtgttttga
cacgaatctggcgttattcaccaaaattctccagaatttcagtcaaaacgtctcttatacctgaataattcagttagtactgttgaaagtaattagcttt
gagattgaaaatgaaggaactttgggattagttagccttcaagtacatgaagtaatgttttgtatctgaaacctttaaacattgtggaccaaactactcg
ttgatcttatggatgatattttctgtctttaatggaagctgtgataagtgtaggaaagggagagctatcatttacttttatctttaccaaactccttgtt
tagatttggttgtttttacagttttagtggtgaggacgaagaatagtgtaaaatgtctcttctctgttctaattttctttcatttgttgctcttttgaag
TT►TCCGGCTCTACGTGAGTTTGTTAA◄GATGGGGAAACCTGTTTGGGGGACA◄TGCGCAGGTCTTATATTCTTGGCA►GACAGAGCAGTTGgtgagtac
ttgaattcatcttcctgttgcggaaaatttagaaacttgagtaaatgttgaaattttagGTCAGAAAGAGGGAGGTCAGGAATTAGTTGGTGGCCTTGAT
TGCACCGTACATAGGAACTTCTTCGGTAGCCAGgttatgtctcttaccaagattccgggttcatgttaagaaaatgtgtaaacacatatttaaatcaatc
ttgacttgcaatatgtggaaaaagaaactgcttatattagcatgagttgtggtgtactgatatataaaactcggtcttttcatgaatcaatgggagtaat
ttcatatggattctcattcactcttagtatcaaataagatgttgtgaaaatcttagattgttctcgaatttgtttttgatgtgtagATTCAAAGTTTTGA
AGCTGATATCTTAGTACCTCAACTAACATCTCAAGAAGGTGGGCCAGAGACATACAGGGGAGTGTTCATACGTGCTCCAGCTGTTCTTGATGTAGGTCCT
GATGTCGAAGTCCTGGCGGATTATCCCGTCCCATCAAACAAGGTCTTGTATTCAAGCTCCACCGTACAAATTCAAGAGgtttgcttaattttgcactaat
tttcatgaaacgattactcttttgtgagcacatgtatgaatcccttcttgttggtttcattttttggggataaatcagGAAGATGCTCTTCCTGAAACAA
AAGTCATTGTTGCTGTGAAGCAAGGAAACTTGTTAGCAACTGCTTTTCATCCCGAGCTTACTGCAGACACTCGATGgtaattgattaacattttccccga
tcttttgatatttgcagcaatgatctatatggtctgtttttactctttccggtttcattttttttgcagGCACAGTTATTTCATAAAGATGACGAAAGAG
ATTGAGCAAGGAGCTTCTTCAAGCAGTAGTAAGACTATTGTATCTGTTGGAGAAACAAGTGCTGGTCCCGAGCCAGCTAAGCCTGATCTTCCTATATTTC
AATAActgaacagagagaagatacacacttcttaaaataaaaaccagagaaagtgtcagattctttatctttctaaagatgttttggaaaaattgcaagc
tagtttgcaatttgcactcaagaaagtttcacaagactctttaatggattcatgtacttgtttcttgatacaactttatatatacagttgaatctcaaac
ttttttgctgattcaatttggtctatgtcttgtgaaatgtgaaaggtcgtttggccaagaattaagctttagataactgtcagcgtttataggcagaaca
gaacatgctctgaaagtataactcggtagggttttggttcaatggtttagaagctaacccggtttatagtaaaccagtcagctgactttgacgcgtttga
cttttcattgctttctcgaaagggtgcaatcttgtagtagtgggcggctttgggccaatgaaagtcaagaaaagttacttaaaatgcacacatttacaga
tatg

Border_1 (85146_RB)


ATTAGGCACCCCAGGCTTTACACTTTATGCTTCCGGCTCGTATGTTGTGTGGAATTGTGAGCGGATAACAATTTCACACAGGAAACAGCTATGACCMTGV
TTCGGCCAMGCTCGAAATTAACCCTC:CTAAAGGGAACAAAAGCTGGAGCTCGCTTGAGCTTGGATCAGATTGTCGTTYCCCGCCTTCAGTTTATGCATG
CTAGCATATGCCATGGAAACTATCAGNGTTTGANCCTATCAATTNCATAACCAATTNGTGTACATTAAACAGGTTNCCCCATNTTAACAAACTCACGTAN
AGCCGGAANCTTCAAAAGAGCAACAAATGAAANAAATTTAGAACAGAGAAGAGACWTTTTACACTATTCTTCGCCCTCACCACTAAAACNGTAAAAACAA
CCAAATTTAAMCAGGGNGTTNGGAAAANATAAAAGNAAATGATAGCTCTCCCTTTCCTACACTTATCACAGCTTCCATTAAAGACAGAAAATNTCATCCA
TAARATCAACGAGNTAGTTTGGCCCACANTGTTTAAANGGTTTCAAATACAAAACATTACTTCATGNACTGGAAGGC

Start of BLAST Alignment:	NT 724 / Exon 2 of 6
First 15 bp Perfect Match:	NT 699 / Exon 2 of 6

BLAST Details:
Query Sequence: 85146_RB 
Length: (576 letters) 
Database: Genes from AGI, Total Genome (DNA);
                                                                     Smallest
                                                                       Sum
                                                              High  Probability
Sequences producing High-scoring Segment Pairs:              Score  P(N)      N

At5g60540 68418.t07025 SNO glutamine amidotransferase fam...  1354  8.7e-57   1
At1g53090 68414.t05513 WD-40 repeat family protein / phyt...   177  0.99992   1


>At5g60540 68418.t07025 SNO glutamine amidotransferase family protein similar
           to pyridoxine synthesis protein PDX2 [Cercospora nicotianae]
           GI:9954418; contains Pfam profile PF01174: SNO glutamine
           amidotransferase family
        Length = 2180

  Minus Strand HSPs:

 Score = 1354 (209.2 bits), Expect = 8.7e-57, P = 8.7e-57
 Identities = 289/319 (90%), Positives = 292/319 (91%), Strand = Minus / Plus

Query:   576 GCCTTCCAGTNCATGAAGTAATGTTTTGTATTTGAAACCNTTTAAACANTGTGGGCCAAA 517
             |||||| ||| |||||||||||||||||||| ||||||| |||||||| ||||| |||||
Sbjct:   563 GCCTTCAAGTACATGAAGTAATGTTTTGTATCTGAAACC-TTTAAACATTGTGGACCAAA 621

Query:   516 CTANCTCGTTGATYTTATGGATGANATTTTCTGTCTTTAATGGAAGCTGTGATAAGTGTA 457
             ||| |||||||||+|||||||||| |||||||||||||||||||||||||||||||||||
Sbjct:   622 CTA-CTCGTTGATCTTATGGATGATATTTTCTGTCTTTAATGGAAGCTGTGATAAGTGTA 680

Query:   456 GGAAAGGGAGAGCTATCATTTNCTTTTATNTTTTCCNAACNCCCTGKTTAAATTTGGTTG 397
             ||||||||||||||||||||| ||||||| ||| || ||| || ||+||| |||||||||
Sbjct:   681 GGAAAGGGAGAGCTATCATTTACTTTTATCTTTACCAAACTCCTTGTTTAGATTTGGTTG 740

Query:   396 TTTTTACNGTTTTAGTGGTGAGGGCGAAGAATAGTGTAAAAWGTCTCTTCTCTGTTCTAA 337
             ||||||| ||||||||||||||| |||||||||||||||||+||||||||||||||||||
Sbjct:   741 TTTTTACAGTTTTAGTGGTGAGGACGAAGAATAGTGTAAAATGTCTCTTCTCTGTTCTAA 800

Query:   336 ATTTNTTTCATTTGTTGCTCTTTTGAAGNTTCCGGCTNTACGTGAGTTTGTTAANATGGG 277
              ||| ||||||||||||||||||||||| |||||||| |||||||||||||||| |||||
Sbjct:   801 TTTTCTTTCATTTGTTGCTCTTTTGAAGTTTCCGGCTCTACGTGAGTTTGTTAAGATGGG 860

Query:   276 GNAACCTGTTTAATGTACA 258
             | |||||||||   | |||
Sbjct:   861 GAAACCTGTTTGGGGGACA 879


>At1g53090 68414.t05513 WD-40 repeat family protein / phytochrome A-related
           contains 7 WD-40 repeats (PF00400) (1 below cutoff); similar to
           phytochrome A supressor spa1 (GI:4809171) [Arabidopsis thaliana]
        Length = 3546

  Minus Strand HSPs:

 Score = 177 (32.6 bits), Expect = 9.5, P = 0.99992
 Identities = 147/263 (55%), Positives = 149/263 (56%), Strand = Minus / Plus

Border_2 (85146_LB)


GCCTTTTCAGAAATGGATAAATAGCCTTGCTTCCTATTATATCTTCCCAAATTACCAATACATTACACTAGCATCTGAATTTCATAACCAATCTCGATAC
ACCAAATCGAATTCAATTCGGCGTTAATTCAGTACATTAAAAACGTCCGCAATGTGTTATTAAGTTGTCTAAGCGTCAATTTGTTTACAAGACAGAGCAG
TTGGTGAGTACTTGAATTCATCTTCCTGTTGCGGAAAATTTAGAAACTTGAGTAAATGTTGAAATTTTAGGTCAGAAAGAGGGAGGTCAGGAATTAGTTG
GTGGCCTTGATTGCACCGTACATAGGAACTTCTTCGGTAGCCAGGTTATGTCTCTTACCAAGATTCCGGGTTCATGTTAAGAAAATGTGTAAACACATAT
TTAAATCAATCTTGACTTGCAATATGTGGAAAAAGAAACTGCTTATATTAGCATGAGTTGTGGTGTACTGATATATAAAACTCGGTCTTTTCATGAATCA
ATGGGAGTAATTTCATATGGATTCTCATTCACTCTTAGTATCAAATAAGATGTTGTGAAAATCTTAGATTGTTCTCGAATTTGTTTTTGATGTGTAGATT
CAAAGTTTTGAAGCTGATATCTTAGTACCTCAACTAACATCTCAAGAAGGTGGGCCAGAGACATACAGGGGAGTGTTCATACGTGCTCCAGCTGTTCTTG
ATGTAGGTCCTGATGTCGAAGTCCTGGCGGATTATCCCGTCCCATCAAACCAAGGTCTTGTATTCAAGCTCCCCCGTACAAATNAAGGAGGGNTTGCTTA
AATTTTGCACTAATTTTTGATGAACGATTACTCTTTT

Start of BLAST Alignment:	NT 675 / Exon 2 of 6
First 15 bp Perfect Match:	NT 748 / Exon 2 of 6

BLAST Details:
Query Sequence: 85146_LB 
Length: (837 letters) 
Database: Genes from AGI, Total Genome (DNA);
                                                                     Smallest
                                                                       Sum
                                                              High  Probability
Sequences producing High-scoring Segment Pairs:              Score  P(N)      N

At5g60540 68418.t07025 SNO glutamine amidotransferase fam...  3125  8.9e-137  1
At5g34846 68418.t03770 gypsy-like retrotransposon family ...   207  0.52      1
At4g04296 68417.t00565 non-LTR retrotransposon family (LI...   197  0.86      1
At5g51230 68418.t05902 embryonic flower 2 (EMF2) identica...   197  0.91      1


>At5g60540 68418.t07025 SNO glutamine amidotransferase family protein similar
           to pyridoxine synthesis protein PDX2 [Cercospora nicotianae]
           GI:9954418; contains Pfam profile PF01174: SNO glutamine
           amidotransferase family
        Length = 2180

  Plus Strand HSPs:

 Score = 3125 (474.9 bits), Expect = 8.9e-137, P = 8.9e-137
 Identities = 677/725 (93%), Positives = 677/725 (93%), Strand = Plus / Plus

Query:   117 TTCGGCGTTAATTCAGTACATTAAAAACGTCCGCAATGTGTTATTAAGTTGT-CTAAGCG 175
             | ||||  ||  | |||   |||| |  |   | ||  ||||     |   | |  || |
Sbjct:   831 TCCGGCTCTACGTGAGTTTGTTAAGATGGG--GAAACCTGTTTGGGGGACATGCGCAG-G 887

Query:   176 TCA-AT-TTGTTTACAAGACAGAGCAGTTGGTGAGTACTTGAATTCATCTTCCTGTTGCG 233
             ||  || || ||  || |||||||||||||||||||||||||||||||||||||||||||
Sbjct:   888 TCTTATATTCTTGGCA-GACAGAGCAGTTGGTGAGTACTTGAATTCATCTTCCTGTTGCG 946

Query:   234 GAAAATTTAGAAACTTGAGTAAATGTTGAAATTTTAGGTCAGAAAGAGGGAGGTCAGGAA 293
             ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct:   947 GAAAATTTAGAAACTTGAGTAAATGTTGAAATTTTAGGTCAGAAAGAGGGAGGTCAGGAA 1006

Query:   294 TTAGTTGGTGGCCTTGATTGCACCGTACATAGGAACTTCTTCGGTAGCCAGGTTATGTCT 353
             ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct:  1007 TTAGTTGGTGGCCTTGATTGCACCGTACATAGGAACTTCTTCGGTAGCCAGGTTATGTCT 1066

Query:   354 CTTACCAAGATTCCGGGTTCATGTTAAGAAAATGTGTAAACACATATTTAAATCAATCTT 413
             ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct:  1067 CTTACCAAGATTCCGGGTTCATGTTAAGAAAATGTGTAAACACATATTTAAATCAATCTT 1126

Query:   414 GACTTGCAATATGTGGAAAAAGAAACTGCTTATATTAGCATGAGTTGTGGTGTACTGATA 473
             ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct:  1127 GACTTGCAATATGTGGAAAAAGAAACTGCTTATATTAGCATGAGTTGTGGTGTACTGATA 1186

Query:   474 TATAAAACTCGGTCTTTTCATGAATCAATGGGAGTAATTTCATATGGATTCTCATTCACT 533
             ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct:  1187 TATAAAACTCGGTCTTTTCATGAATCAATGGGAGTAATTTCATATGGATTCTCATTCACT 1246

Query:   534 CTTAGTATCAAATAAGATGTTGTGAAAATCTTAGATTGTTCTCGAATTTGTTTTTGATGT 593
             ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct:  1247 CTTAGTATCAAATAAGATGTTGTGAAAATCTTAGATTGTTCTCGAATTTGTTTTTGATGT 1306

Query:   594 GTAGATTCAAAGTTTTGAAGCTGATATCTTAGTACCTCAACTAACATCTCAAGAAGGTGG 653
             ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct:  1307 GTAGATTCAAAGTTTTGAAGCTGATATCTTAGTACCTCAACTAACATCTCAAGAAGGTGG 1366

Query:   654 GCCAGAGACATACAGGGGAGTGTTCATACGTGCTCCAGCTGTTCTTGATGTAGGTCCTGA 713
             ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct:  1367 GCCAGAGACATACAGGGGAGTGTTCATACGTGCTCCAGCTGTTCTTGATGTAGGTCCTGA 1426

Query:   714 TGTCGAAGTCCTGGCGGATTATCCCGTCCCATCAAACCAAGGTCTTGTATTCAAGCTCCC 773
             ||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||| 
Sbjct:  1427 TGTCGAAGTCCTGGCGGATTATCCCGTCCCATCAAAC-AAGGTCTTGTATTCAAGCTCCA 1485

Query:   774 CCGTACAAATNAAGGAGGGNTTGCTTAAATTTTGCACTAATTTTTGATGAA-CGATTACT 832
             ||||||||||  | ||||  |||||||| |||||||||||||||  ||||| ||||||||
Sbjct:  1486 CCGTACAAATTCAAGAGG-TTTGCTTAA-TTTTGCACTAATTTTC-ATGAAACGATTACT 1542

Query:   833 CTTTT 837
             |||||
Sbjct:  1543 CTTTT 1547


>At5g34846 68418.t03770 gypsy-like retrotransposon family (Athila) has a
           1.2e-44 P-value blast match to GB:CAA57397 Athila ORF 1 [Arabidopsis
           thaliana]
        Length = 2220

  Minus Strand HSPs:

 Score = 207 (37.1 bits), Expect = 0.73, P = 0.52
 Identities = 155/264 (58%), Positives = 155/264 (58%), Strand = Minus / Plus