At5g27720 SYNGENTA 50481
Genomic Sequence (from TAIR)
taacaatatatactaaaacagataatattataaagttaagggactcgagtgcaaaactcaaaaaagttcccattgacctaaaactaaaagaccaccgatt cattaga◄aatc◄catccctctcactgtc►aaaacccgagaagcagaaaaaagcaaaaaacagatttcgaagtttcgacgcctctctattcttcgatctc tttcatatttgaatcgttcaccttcttgccgatcttcggagtatattacaaggtttctcccttttctctcagattttttttagtagctgaattagggttt ttgttccgttttcgctattgcttcttccgcatcttataaagggtttaatgttatacttctctgatgtcatcaggttcttaacggatctctaaatcttctg atttaagaagATGgtaagttactagacaaacttagggtttttttccttctttcttgtttgcgttaaagtttcaatttttattaactgaaagctgttgttt tgattttatagCTTCCTCTATCGCTGCTTAAAACTGCTCAAGGGCATCCTATGgtgagtaaaatttcgacccttgattacaattttgttatatatgaagt gaagctgagtttaagtgagcattgcattagggatctaaaggaacttccttttactgtaattttgaatcttgttttgttttggtagCTCGTGGAGCTTAAG AATGGAGAGACATACAATGGGCATTTGGTGAATTGTGATACTTGGATGAACATCCATCTGCGTGAAGTCATATGTACATCAAAGgttatcttatgttttc atatgttgatacaaatatactttgtttagacttcgtgatgaaattttgtgtagctgacactcatatattttgctgcttgattactctagGACGGAGATAG ATTTTGGAGGATGCCGGAATGTTATATCCGTGGTAACACAATCAAGTACCTTCGAGTTCCGGATGAGgtaatttttttttgtgtgtgtgtgtatatatct cttgcttgatctagttttttctttgttcccctctctctggaatgatgatgcttagccaaatcagatatgtgctccaagaggcatttttctgtggaacctt gttcagcagatggtgtgcctcttgttgtagtgcgtcttagacgatatcacagggaatggttattgctgaccagaatgttgacccacttttatggactttg ctgtgttgtgtttctgatgcgatttttctctattgtttctactttatttcattccctctaaaatcaaattatattcacataccataaacgatatcttcat ctagaaggacagtcatatgctgtttctatttatgttcttactgctgcaacctagattgagttaactgacttaaattgatttcttctctcttcagGTGATT GATAAAGTACAGGAGGAGAAGACACGCACAGgtatagtattactcatgtctatattgtacctttactgagatatgcttcgagttttctgaggtgttaata ttttgccagagtagacattgagaatacttcaggtgttaataacgatggttgaatatgtgcagATAGAAAACCACCAGGTGTTGGACGTGGAAGAGGACGT GGTGTGGATGATGGAGGAGCCAGAGGCAGAGGCAGAGGAACTTCAATGGGGAAGATGGGTGGCAACAGAGgtaaaaaatacacaaacaaagcttgtcaca aaactctgattttactagaatacttcaaatatctgtgtcttgccacaatgggatttaagctaaaactctaatatgttatgaaaaacagGAGCAGGTCGCG GCCGTGGTTGAtgcaacaagttttaaagactcgctgccaaatctgctaacttcccattgtggagaaaaccaaaagttacataagaagttggtctgttgtt ggttttctattaagtatgtaagggatagggagtgtgtttttcgattctccttgtgatcttttcgaaaaatgaaatttgtcttttgcctttttgtggtata tgtgaaattccaattgttttcatttgcgcttaaaaatgaatctttcaggtcttgaatttatataattgttagagaatttatacaattaaccaacgacagg gtttttataagatctttggtccatcttacccttttattatttttctttttttcctatctattctttttttcctctttcaccggattttctccatcactcg tcggcatgacatataagattagatatgatttaaaaaacgcatgtatttcaaagacaaaacatgctcttaagtctttacattgacttgtaaatttttgtca agc
Border_1 (50481_LBD)
GCCTTTTCAGAAATGGATAAATAGCCTTGCTTCCTATTATATCTTCCCAAATTACCAATACATTACACTAGCATCTGAATTTCATAACCAATCTCGATAC
ACCAAATCGAATTCAATTCGGCGTTAATTCAGTACATTAAAAACGTCCGCAATGTGTTATTAAGTTGTCTAATGAATCGGTGGTCTTTTAGTTTTAGGTC
AATGGGAACTTTTTTGAGTTTTGCACTCGAGTCCCTTAACTTTATAATATTATCTGTTTTAGTATATATTGTTAAACATATCAATCTAGCCAACTAATCC
GATGTCGTCCAGCGGTTAGGATATCTGGCTTTCACCCAGGAGACCCGGGTTCGATTCCCGGCATCGGAGCTTTTTGTTTTAATTTTTCGTATACTTTGTC
TACACCAAAGTGTATTTGTAGCCGTTGGCAATGGTTACCTGGTGGAAAATAACTAATCATTAATATGTTATTGATGCTCTCGAAATTAATTAATTTACAT
CACTAAGGCGAACTGTGTGAATCAAACAAAGCCAAGTGATATGTCAAATCTAATCCTAAACTTTTACAATTAAGCTTAAAGCCTCAGCAATGTGATTGTT
AAAGCTATTTTGTAACCGACAATACTTCAGACCTCTCTAAATTATCAACCAACTCGAACGTTATTGAACCTCGACCAGCTCCAGTAACTAAATCTTAATC
AAAGTTTCAATTACACACAACTGTGTAATTGTGAATCTGTAACTGGTTTGTTTCAGCACATGAAAAGCTGATAGCAGGNGNGCC
| Start of BLAST Alignment: | NT < 296 / Exon 1 (Intron 1 in 5’ UTR) |
| First 15 bp Perfect Match: | NT < 300 / Exon 1 (Intron 1 in 5’ UTR) |
BLAST Details: Query Sequence: 50481_LBD Length: (784 letters) Database: TIGR AGI BAC Sequences (DNA); Smallest Sum High Probability Sequences producing High-scoring Segment Pairs: Score P(N) N T1G16 67960 3047 1.8e-131 1 F7G19 50888 514 4.9e-17 1 T4O12 51416 495 3.6e-16 1 AP22 68071 479 1.9e-15 1 T1G16 67960 Length = 93,672 Minus Strand HSPs: Score = 3047 (463.2 bits), Expect = 1.8e-131, P = 1.8e-131 Identities = 613/616 (99%), Positives = 613/616 (99%), Strand = Minus / Plus Query: 778 CCTG-CTATCAGCTTTTCATGTGCTGAAACAAACCAGTTACAGATTCACAATTACACAGT 720 |||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct: 35246 CCTGACTATCAGCTTTTCATGTGCTGAAACAAACCAGTTACAGATTCACAATTACACAGT 35305 Query: 719 TGTGTGTAATTGAAACTTTGATTAAGATTTAGTTACTGGAGCTGGTCGAGGTTCAATAAC 660 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct: 35306 TGTGTGTAATTGAAACTTTGATTAAGATTTAGTTACTGGAGCTGGTCGAGGTTCAATAAC 35365 Query: 659 GTTCGAGTTGGTTGATAATTTAGAGAGGTCTGAAGTATTGTCGGTTACAAAATAGCTTTA 600 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct: 35366 GTTCGAGTTGGTTGATAATTTAGAGAGGTCTGAAGTATTGTCGGTTACAAAATAGCTTTA 35425 Query: 599 ACAATCACATTGCTGAGGCTTTAAGCTTAATTGTAAAAGTTTAGGATTAGATTTGACATA 540 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct: 35426 ACAATCACATTGCTGAGGCTTTAAGCTTAATTGTAAAAGTTTAGGATTAGATTTGACATA 35485 Query: 539 TCACTTGGCTTTGTTTGATTCACACAGTTCGCCTTAGTGATGTAAATTAATTAATTTCGA 480 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct: 35486 TCACTTGGCTTTGTTTGATTCACACAGTTCGCCTTAGTGATGTAAATTAATTAATTTCGA 35545 Query: 479 GAGCATCAATAACATATTAATGATTAGTTATTTTCCACCAGGTAACCATTGCCAACGGCT 420 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct: 35546 GAGCATCAATAACATATTAATGATTAGTTATTTTCCACCAGGTAACCATTGCCAACGGCT 35605 Query: 419 ACAAATACACTTTGGTGTAGACAAAGTATACGAAAAATTAAAACAAAAAGCTCCGATGCC 360 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct: 35606 ACAAATACACTTTGGTGTAGACAAAGTATACGAAAAATTAAAACAAAAAGCTCCGATGCC 35665 Query: 359 GGGAATCGAACCCGGGTCTCCTGGGTGAAAGCCAGATATCCTAACCGCTGGACGACATCG 300 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct: 35666 GGGAATCGAACCCGGGTCTCCTGGGTGAAAGCCAGATATCCTAACCGCTGGACGACATCG 35725 Query: 299 GATTAGTTGGCTAGATTGATATGTTTAACAATATATACTAAAACAGATAATATTATAAAG 240 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct: 35726 GATTAGTTGGCTAGATTGATATGTTTAACAATATATACTAAAACAGATAATATTATAAAG 35785 Query: 239 TTAAGGGACTCGAGTGCAAAACTCAAAAAAGTTCCCATTGACCTAAAACTAAAAGACCAC 180 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct: 35786 TTAAGGGACTCGAGTGCAAAACTCAAAAAAGTTCCCATTGACCTAAAACTAAAAGACCAC 35845 Query: 179 CGATTCATTAGACAAC 164 |||||||||||| | | Sbjct: 35846 CGATTCATTAGAAATC 35861 F7G19 50888 Length = 110,514 Minus Strand HSPs: Score = 514 (83.2 bits), Expect = 4.9e-17, P = 4.9e-17 Identities = 240/365 (65%), Positives = 240/365 (65%), Strand = Minus / Plus
Border_2 (50481_RBU)
ATTAGGCACCCCAGGCTTTACACTTTATGCTTCCGGCTCGTATGTTGTGTGGAATTGTGAGCGGATAACAATTTCACACAGGAAACAGCTATGACCATGA
TTACGCCAAGCKCGMAATTAACCCTCACTAAAGGGAACAAAAGCTGGAGCTCGCTTGAGCAGAAAACCCGAGAAGCAGAAAAAAGCAAAAAACAGATTTC
GAAGTTTCGACGCCTCTCTATTCTTCTCACT
| Start of BLAST Alignment: | NT < 280 / Exon 1 of 8 (Intron 1 in 5’ UTR) |
| First 15 bp Perfect Match: | NT < 280 / Exon 1 of 8 (Intron 1 in 5’ UTR) |
BLAST Details: Query Sequence: 50481_RBU Length: (231 letters) Database: Genes from AGI, Total Genome (DNA); Smallest Sum High Probability Sequences producing High-scoring Segment Pairs: Score P(N) N At5g27720 68418.t03025 small nuclear ribonucleoprotein, p... 222 0.00031 1 >At5g27720 68418.t03025 small nuclear ribonucleoprotein, putative / snRNP, putative / Sm protein, putative similar to SWISS-PROT:Q9QXA5 U6 snRNA-associated Sm-like protein LSm4 [Mus musculus] Length = 1998 Plus Strand HSPs: Score = 222 (39.4 bits), Expect = 0.00031, P = 0.00031 Identities = 50/64 (78%), Positives = 50/64 (78%), Strand = Plus / Plus Query: 163 AAAACCCGAGAAGCAGNNNNNNNNNNNNNNCAGATTTCGAAGTTTCGACGCCTCTCTATT 222 |||||||||||||||| |||||||||||||||||||||||||||||| Sbjct: 50 AAAACCCGAGAAGCAGAAAAAAGCAAAAAACAGATTTCGAAGTTTCGACGCCTCTCTATT 109 Query: 223 CTTC 226 |||| Sbjct: 110 CTTC 113