SustainPineDB

Assembly Name: SustainPine v3.0

UniGene Name: sp_v3.0_unigene10678

Length: 3714 nt

This UniGene was originaly assembled in antisense
ACE File: antisense
Fasta: sense

UniGene Fasta (sense)

>sp_v3.0_unigene10678
CCCTCAAATTTCCATTTTCCCTGCCAAATACCCATTTTTAGAGAGCATCCCCACCTGCCCCTGCTGCTATCGGAAAAGGACAATGGAAATTCTTATATCAATCCGTGGTTAGCTTTGCTTTCATCAATTGCCGCTCCTGGTGCTGCTGCTGCTGCAGGAGGATCCATCATCATCATTATCATAATTCATGGGTGGATGGAATAACAATACTAAATCTTCTGAACATGGACGGGAAGGACTGACAGAGATATGATTATGATGATGATGATAAGTGTGTTTTCGGGCTGTTCAATATTTTTATATATGGTAAAAGCCTCGCAGATATAGTATCTCCTTCCTTCCTTCCTTCCAGGGTGACAGGAATGTACATCCCACGACCTGTCTGGTGTCATTCCTGCATCATCATATCATTTAAGGCACATGGTGAATAGCTATGAGACCTTATTCTTGTGCGTAAAACTGCAATTGTGCATTTCATGGGCATTCACGGTTCTGCTACAAAGACATTTGCTGCATCTGGAATGTTGCTGGTTGTTGTCTGTATTCAAGGAAACATCTTTTCTTTTTGAATACTTATAGGAGAGGCCAGCCAATTTGAAAACACACAGACAGGTTTGAATAAAATCCTATAAGAGGCACTGACAGACCAAAAGCAATCGCATAATCAAGTGAGGTGATAGCTTCTCAAAGGATGTTCTCTTGGCATCCAAAAATCACCTAGTAATAGTGCTGCATTTGTGTGTTCAGCCTTGGGCCTGAATTGACTGCTGTCAATGCTCAACCAAGTGGTTGGAGACTTGAAGGAAGCATTTTTGGGTTAAGCTAAAACAGCAGAAAGATAATGGCTACTTACTTTCCAGGTTCAAATATTCAGCCAGATACCATGCAAACCCTTTACCTAATGAACCCTGATTATACAGGTTATTCAGACATGCAAACTCCAGGCAACATGGTACTTATAAATCAATCAGCAGGAACTCCATCAGCAAACAGTCATTTGGCTGGTGGTGGGCATCCACAGCAACATTTCATTGGAATCCCATTTTCTTCTGCCCCACATCCACAACGGTATTCCATGGCATCAGTGGAAAGCTCAGGTGGAGCACAACAGGATGTTACTGCAACTTTACTCTCATCTCGGCCCGGAAATCATGGTTACAATGTATGGAGAAATGTGGGAAATGAACTTACATTCATGCAAACAACAGATCCTACCCACCATAATAATCACTCCCTTTCTGGGCAGCTAAACAATTTTTCTAATTTGGGCCATCAATCTATTTCTGAGATTTCTCCAACAGGTATGAAACGTGCTACTATGTCTTCCATGCCCGAACAACAACTGGGAATGAATCCAAATGGACTAGGTTTGCAGCTAGATCAGTCACAAGGTTTGGCAGCACATGGACGGGGGCTTTCTCTTAGCCTTTCTCCCCAACAGCTTTCAAATATCCAGTTATCCTGCTTTCAAAATCAGCCTACAGACTCAGAAGTGAATTGCCCCAGTATTTCAGAAGCAACTTCACAAGAGAACATGAATAGGTCTGATAGACTAACAAGTAAATTGTCAGGAAGTCTGAGTTCTTTTCGGGCTTCCTCAAGGGATGGGATGCTAGGAACTAAATTTCTAGGTAGTGTGAATGGCCCTGAGTGTAACAAACCGATGCATCATGGTACGAATGCAATTGGAGCAGCAGAGCTCTCAAACGCTTTAACTGGTTCCAAATATTTTAAAGCAGCACAGCAATTACTTGATGAAGTTGTAAATGTTGGAAAGGGTATCAAGTCTGATTCAGTCAACCATCAAAAATCCCAAACATGGTTTGGTACAATATCTGACAAAAAGAATATTGCAACTGAAGCTACTACAAATGACCGAACAACATCTGCAATAACAGGAGCTTCAATTTCTGCAGAAGTAATGAAAAACGAGCATGCTTTTGGACTGACACCAGCTGATAGACAAGAACTTCAGATGAAAAAGGCAAAGCTTGTTGCCATGTTGGATGAGGTGGATCGAAGGTACAGACAGTACTATCATCAGATGCAAATCGTTGTTTCATCGTTTGAGGCCGCAGCTGGATTTGGGGCTGCCAAGACATACACTTCTCTTGCACTCAAAACAATTTCCAGGCATTTTCGATCTTTGAGAGATGCAATTGCTGGCCAAATTCGATTGACTAGCAAAAATCTAGGGGAGGAAGACTTAACGGGAAGTGGAAAAGGTGAGACATCCCGTCTTCACTTTGTTGATCAACAATTACGACAACAGCGAGCTCTTCAGCAGCTAGGAATGATACAGCAGCATGCCTGGAGACCACAAAGAGGGCTTCCAGAGAGGGCTGTTTCTATTCTCCGGGCTTGGCTATTTGAGCATTTCCTTCATCCGTACCCAAAAGATGCTGACAAACATTTACTAGCAAGACAGACTGGACTGACCAGAAGCCAGGTCTCAAATTGGTTTATAAATGCACGTGTCCGCCTTTGGAAACCCATGGTGGAAGAAATGTATATGGAGGAACTTAGAGAGGCCGAAACACAAAATCATGCAGCAGATTCGAAGGTAACAACAGAAAGTGGTCAAAACAATGAAGAAACGGTGTCAAAGGAAGGAGCTGGGAACAGTGAAAATGGACAAGAGGAGAAAAGTATAAAAAATAGGATTCTCAATAACAGCATAGAGGAAGGAGGCTATATACAACAGAATGGTACTGTAAATGGTGGTTTCAAGCCTGATCAGGCTTCTGATAGGATTAATGGTAGAAATCAGACTACAGGCATGACTGGTGTATCAGACAGTCATGTATTTCATGAAATTGATAATGAGGATCTGAGGCAAGGTCAACAGAAGAAAATTAGGACTGGAATTCAGGACTCTACAATACTTCTGCCCCCTAACATGGGCATGGATGTTGATTTAAAATCTGAGGAAACAGGCAGTGAGTATATCCTTGATAGCAGCAAGTTTGCCAGTGATGAAAAACATGCTTCTGAGGGTTACAGCTTTGCCAATAACAAAATGGTTCGCCTGGATGATAATGGAAGCTTCGGGTCATACCAATTGGGGGGATTAAGTAGATATGGCCAGGAAACTTTTACCCCCAAGTATTCTGGAATTGGTGGCGTGTCTCTTACACTTGGATTGCAACATTGTGATGATTTATCATTATCAGGAACTCAACAGAGTTACAATTCCACTCAAGGTTTAGGTTCAGGAAGGAGACATGATTTAGCCAGTGACACAGATGATTACTGTCACATCCATGACGCTTCAGCTGTACGTGGTGCAAGTAACTATGACAACATGAGCATGCAAAATGGAAAGCGGTTTGCAACTCATATGTTGCATGACTTTGTAGCTTAAACCATTCAAGACATACTGTAAAGCTTGTGCATTCACCTACAGTTTTTCTTTCTTTAGGATGACTATTTTCTGCATTCATTTTGTTTTTCTAATCCTGTATTTGTAAGGTGAGTTGTAACATAAACCTGGATAGGAAGTACATACTATCGCGAGCTATGGTGGTAAAAACGTAGGGAACCCATGTTTTTAATTATTATCAGGCTTTTCCTCTCCCTCTTCGAGGAAATAAGCATAAGCCTACTGTAAAGTGCACACCAATATAAATATCAAATTGTCTCAATGAATGAGTATAAATTCAGTCAGACTGTGAATCTCAAATTGTCCCAATTAATGAGTATAAGGCACGCGAG

Ace file of the UniGene sp_v3.0_unigene10678 (antisense)

Annotations

Source	Descriptions	Term	Type	e value	Identity
AutoFact	BEL1-like homeodomain transcription factor [Trifolium pratense]	-	-	0.0	39%
FL-Next	tr=Homeobox transcription factor KN4; Picea mariana (Black spruce) (Abies mariana).	-	-	0.0	49%
Sma3	Associated with HOX family protein, expressed	-	-	2.045e-18	-

Source	Gene names
Sma3	At1g75410; At1g75430; At2g16400; At2g27990; At4g34610; BIHD1; BIP; BL1; BL3; BLH11; BLH3; BLH6; BLH7; BLH8; Bel1; Bel11; Bel13; Bel14; Bel22; Bel29; Bel30; Bel5; F16F14.10; F1B16.4; F1B16.6; GSVIVT00002560001; GSVIVT00014546001; GSVIVT00014547001; GSVIVT0

Source	GOs	Term	Type	Identity
Sma3	nucleus	GO:0005634	Cellular Component	-
Sma3	membrane	GO:0016020	Cellular Component	-
Sma3	DNA binding	GO:0003677	Molecular Function	-
Sma3	sequence-specific DNA binding transcription factor activity	GO:0003700	Molecular Function	-
Sma3	transporter activity	GO:0005215	Molecular Function	-
Sma3	protein binding	GO:0005515	Molecular Function	-
Sma3	sequence-specific DNA binding	GO:0043565	Molecular Function	-
Sma3	regulation of transcription, DNA-dependent	GO:0006355	Biological Process	-
Sma3	oligopeptide transport	GO:0006857	Biological Process	-
Sma3	maintenance of floral meristem identity	GO:0010076	Biological Process	-
Sma3	maintenance of inflorescence meristem identity	GO:0010077	Biological Process	-
Sma3	secondary shoot formation	GO:0010223	Biological Process	-
Sma3	vegetative to reproductive phase transition of meristem	GO:0010228	Biological Process	-
Sma3	inflorescence development	GO:0010229	Biological Process	-
Sma3		GO:0045449	Biological Process	-
Sma3	regulation of timing of transition from vegetative to reproductive phase	GO:0048510	Biological Process	-
Sma3	organ formation	GO:0048645	Biological Process	-
Sma3	internode patterning	GO:0080006	Biological Process	-

Source	InterPros	Term	Type	Identity
Sma3	Oligopeptide transporter	IPR000109	-	-
Sma3	Homeodomain	IPR001356	-	-
Sma3	Alcohol dehydrogenase, zinc-type, conserved site	IPR002328	-	-
Sma3	POX	IPR006563	-	-
Sma3	Protein of unknown function DUF604	IPR006740	-	-
Sma3		IPR012287	-	-
Sma3	Homeobox, conserved site	IPR017970	-	-

Source	Species	ID	Description	e value	Identity
RefSeq	Populus trichocarpa	XP_002299773.1	predicted protein, partial [Populus trichocarpa]	0.0	47%

Full-Lengther Next Prediction

Fln status: Complete

Fln database: coniferopsida.fasta

Fln subject: Q5SC62

Fln msg: your sequence is longer than subject: 841 - 438

Fln protein: MATYFPGSNIQPDTMQTLYLMNPDYTGYSDMQTPGNMVLINQSAGTPSANSHLAGGGHPQQHFIGIPFSSAPHPQRYSMASVESSGGAQQDVTATLLSSRPGNHGYNVWRNVGNELTFMQTTDPTHHNNHSLSGQLNNFSNLGHQSISEISPTGMKRATMSSMPEQQLGMNPNGLGLQLDQSQGLAAHGRGLSLSLSPQQLSNIQLSCFQNQPTDSEVNCPSISEATSQENMNRSDRLTSKLSGSLSSFRASSRDGMLGTKFLGSVNGPECNKPMHHGTNAIGAAELSNALTGSKYFKAAQQLLDEVVNVGKGIKSDSVNHQKSQTWFGTISDKKNIATEATTNDRTTSAITGASISAEVMKNEHAFGLTPADRQELQMKKAKLVAMLDEVDRRYRQYYHQMQIVVSSFEAAAGFGAAKTYTSLALKTISRHFRSLRDAIAGQIRLTSKNLGEEDLTGSGKGETSRLHFVDQQLRQQRALQQLGMIQQHAWRPQRGLPERAVSILRAWLFEHFLHPYPKDADKHLLARQTGLTRSQVSNWFINARVRLWKPMVEEMYMEELREAETQNHAADSKVTTESGQNNEETVSKEGAGNSENGQEEKSIKNRILNNSIEEGGYIQQNGTVNGGFKPDQASDRINGRNQTTGMTGVSDSHVFHEIDNEDLRQGQQKKIRTGIQDSTILLPPNMGMDVDLKSEETGSEYILDSSKFASDEKHASEGYSFANNKMVRLDDNGSFGSYQLGGLSRYGQETFTPKYSGIGGVSLTLGLQHCDDLSLSGTQQSYNSTQGLGSGRRHDLASDTDDYCHIHDASAVRGASNYDNMSMQNGKRFATHMLHDFVA*

Protein Length: 842

Fln nts: CCCTCAAATTTCCATTTTCCCTGCCAAATACCCATTTTTAGAGAGCATCCCCACCTGCCCCTGCTGCTATCGGAAAAGGACAATGGAAATTCTTATATCAATCCGTGGTTAGCTTTGCTTTCATCAATTGCCGCTCCTGGTGCTGCTGCTGCTGCAGGAGGATCCATCATCATCATTATCATAATTCATGGGTGGATGGAATAACAATACTAAATCTTCTGAACATGGACGGGAAGGACTGACAGAGATATGATTATGATGATGATGATAAGTGTGTTTTCGGGCTGTTCAATATTTTTATATATGGTAAAAGCCTCGCAGATATAGTATCTCCTTCCTTCCTTCCTTCCAGGGTGACAGGAATGTACATCCCACGACCTGTCTGGTGTCATTCCTGCATCATCATATCATTTAAGGCACATGGTGAATAGCTATGAGACCTTATTCTTGTGCGTAAAACTGCAATTGTGCATTTCATGGGCATTCACGGTTCTGCTACAAAGACATTTGCTGCATCTGGAATGTTGCTGGTTGTTGTCTGTATTCAAGGAAACATCTTTTCTTTTTGAATACTTATAGGAGAGGCCAGCCAATTTGAAAACACACAGACAGGTTTGAATAAAATCCTATAAGAGGCACTGACAGACCAAAAGCAATCGCATAATCAAGTGAGGTGATAGCTTCTCAAAGGATGTTCTCTTGGCATCCAAAAATCACCTAGTAATAGTGCTGCATTTGTGTGTTCAGCCTTGGGCCTGAATTGACTGCTGTCAATGCTCAACCAAGTGGTTGGAGACTTGAAGGAAGCATTTTTGGGTTAAGCTAAAACAGCAGAAAGATA_-_ATGGCTACTTACTTTCCAGGTTCAAATATTCAGCCAGATACCATGCAAACCCTTTACCTAATGAACCCTGATTATACAGGTTATTCAGACATGCAAACTCCAGGCAACATGGTACTTATAAATCAATCAGCAGGAACTCCATCAGCAAACAGTCATTTGGCTGGTGGTGGGCATCCACAGCAACATTTCATTGGAATCCCATTTTCTTCTGCCCCACATCCACAACGGTATTCCATGGCATCAGTGGAAAGCTCAGGTGGAGCACAACAGGATGTTACTGCAACTTTACTCTCATCTCGGCCCGGAAATCATGGTTACAATGTATGGAGAAATGTGGGAAATGAACTTACATTCATGCAAACAACAGATCCTACCCACCATAATAATCACTCCCTTTCTGGGCAGCTAAACAATTTTTCTAATTTGGGCCATCAATCTATTTCTGAGATTTCTCCAACAGGTATGAAACGTGCTACTATGTCTTCCATGCCCGAACAACAACTGGGAATGAATCCAAATGGACTAGGTTTGCAGCTAGATCAGTCACAAGGTTTGGCAGCACATGGACGGGGGCTTTCTCTTAGCCTTTCTCCCCAACAGCTTTCAAATATCCAGTTATCCTGCTTTCAAAATCAGCCTACAGACTCAGAAGTGAATTGCCCCAGTATTTCAGAAGCAACTTCACAAGAGAACATGAATAGGTCTGATAGACTAACAAGTAAATTGTCAGGAAGTCTGAGTTCTTTTCGGGCTTCCTCAAGGGATGGGATGCTAGGAACTAAATTTCTAGGTAGTGTGAATGGCCCTGAGTGTAACAAACCGATGCATCATGGTACGAATGCAATTGGAGCAGCAGAGCTCTCAAACGCTTTAACTGGTTCCAAATATTTTAAAGCAGCACAGCAATTACTTGATGAAGTTGTAAATGTTGGAAAGGGTATCAAGTCTGATTCAGTCAACCATCAAAAATCCCAAACATGGTTTGGTACAATATCTGACAAAAAGAATATTGCAACTGAAGCTACTACAAATGACCGAACAACATCTGCAATAACAGGAGCTTCAATTTCTGCAGAAGTAATGAAAAACGAGCATGCTTTTGGACTGACACCAGCTGATAGACAAGAACTTCAGATGAAAAAGGCAAAGCTTGTTGCCATGTTGGATGAGGTGGATCGAAGGTACAGACAGTACTATCATCAGATGCAAATCGTTGTTTCATCGTTTGAGGCCGCAGCTGGATTTGGGGCTGCCAAGACATACACTTCTCTTGCACTCAAAACAATTTCCAGGCATTTTCGATCTTTGAGAGATGCAATTGCTGGCCAAATTCGATTGACTAGCAAAAATCTAGGGGAGGAAGACTTAACGGGAAGTGGAAAAGGTGAGACATCCCGTCTTCACTTTGTTGATCAACAATTACGACAACAGCGAGCTCTTCAGCAGCTAGGAATGATACAGCAGCATGCCTGGAGACCACAAAGAGGGCTTCCAGAGAGGGCTGTTTCTATTCTCCGGGCTTGGCTATTTGAGCATTTCCTTCATCCGTACCCAAAAGATGCTGACAAACATTTACTAGCAAGACAGACTGGACTGACCAGAAGCCAGGTCTCAAATTGGTTTATAAATGCACGTGTCCGCCTTTGGAAACCCATGGTGGAAGAAATGTATATGGAGGAACTTAGAGAGGCCGAAACACAAAATCATGCAGCAGATTCGAAGGTAACAACAGAAAGTGGTCAAAACAATGAAGAAACGGTGTCAAAGGAAGGAGCTGGGAACAGTGAAAATGGACAAGAGGAGAAAAGTATAAAAAATAGGATTCTCAATAACAGCATAGAGGAAGGAGGCTATATACAACAGAATGGTACTGTAAATGGTGGTTTCAAGCCTGATCAGGCTTCTGATAGGATTAATGGTAGAAATCAGACTACAGGCATGACTGGTGTATCAGACAGTCATGTATTTCATGAAATTGATAATGAGGATCTGAGGCAAGGTCAACAGAAGAAAATTAGGACTGGAATTCAGGACTCTACAATACTTCTGCCCCCTAACATGGGCATGGATGTTGATTTAAAATCTGAGGAAACAGGCAGTGAGTATATCCTTGATAGCAGCAAGTTTGCCAGTGATGAAAAACATGCTTCTGAGGGTTACAGCTTTGCCAATAACAAAATGGTTCGCCTGGATGATAATGGAAGCTTCGGGTCATACCAATTGGGGGGATTAAGTAGATATGGCCAGGAAACTTTTACCCCCAAGTATTCTGGAATTGGTGGCGTGTCTCTTACACTTGGATTGCAACATTGTGATGATTTATCATTATCAGGAACTCAACAGAGTTACAATTCCACTCAAGGTTTAGGTTCAGGAAGGAGACATGATTTAGCCAGTGACACAGATGATTACTGTCACATCCATGACGCTTCAGCTGTACGTGGTGCAAGTAACTATGACAACATGAGCATGCAAAATGGAAAGCGGTTTGCAACTCATATGTTGCATGACTTTGTAGCTTAA___ACCATTCAAGACATACTGTAAAGCTTGTGCATTCACCTACAGTTTTTCTTTCTTTAGGATGACTATTTTCTGCATTCATTTTGTTTTTCTAATCCTGTATTTGTAAGGTGAGTTGTAACATAAACCTGGATAGGAAGTACATACTATCGCGAGCTATGGTGGTAAAAACGTAGGGAACCCATGTTTTTAATTATTATCAGGCTTTTCCTCTCCCTCTTCGAGGAAATAAGCATAAGCCTACTGTAAAGTGCACACCAATATAAATATCAAATTGTCTCAATGAATGAGTATAAATTCAGTCAGACTGTGAATCTCAAATTGTCCCAATTAATGAGTATAAGGCACGCGAG

Fln Alignment:

Contig10678___LPERAVSILRAWLFEHFLHPYPKDADKHLLARQTGLTRSQVSNWFINARVRLWKP
Q5SC62_______________LPKEARQKLLEWWNVHYKWPYPSETDKVSLAESTGLDQKQINNWFINQRKRHWKP

SNPs (tot: 33)

Position	A %	C %	G %	T %	Probability
1072		25		75	0.996473
2212		25		75	0.996473
2213		25	75		0.996473
2214		25	75		0.996473
2215	25		75		0.996473
2216			75	25	0.996473
2714	90		10		0.90298
2754		10		90	0.90298
2755		10		90	0.90298
2756		10		90	0.90298
3061		33		66	1.0
3169			10	90	0.90298
3299	11		77		0.968132
3414	85	14			0.993533
3415		14		85	0.993533
3416	85	14			0.993533
3417		14		85	0.993533
3419	71	14		14	0.984337
3420	83	16			0.994512
3421	83	16			0.994512
3594		40	40	20	1.0
3595	80			20	0.995493
3598		40	60		1.0
3599	66			33	0.997452
3600	33	66			0.997452
3604	33	66			0.997452
3605	66			33	0.997452
3607			66	33	0.997452
3608		33	66		0.997452
3610	33	66			0.997452
3612		66	33		0.997452
3613		33	66		0.997452
3615		66		33	0.997452

SSRs (tot: 4)

Start position	End position	Sequence	Length
3365	3383	GGAA GGAA GGAA GGAA GGA	19
3446	3459	ATC ATC ATC ATC AT	14
3539	3550	ATG ATG ATG ATG	12
3560	3574	GCA GCA GCA GCA GCA	15

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Biología Molecular y Biotecnología de Plantas, Facultad de Ciencias y Plataforma Andaluza de Bioinformática, Universidad de Málaga, E-29071 Málaga, Spain