SustainPineDB

Assembly Name: SustainPine v3.0

UniGene Name: sp_v3.0_unigene1330

Length: 3282 nt

UniGene Fasta

>sp_v3.0_unigene1330
GATCAACAATTGCTTTTTATCATCGCCGCGAAGTCCAGGGTACGTTTAATTCGCTTTTGTACAAGGAAGCCTGCGTGCTTTTGTCGATGGTAATCTATTCTCCTTGGGAGGTGCCCCAAATTAATGTCAATATCAACAGGAGTGGAATTTTCGTTTCCAGCAGGCGCGAAGAGGGAATAACTAAGATAGTAGCTCTGCAAGCACTGTGAGTAGGAAAATATGTCTCTGTACATATCTTTGTTGATGTGTAAAGGATGTGTGGAAAATGGGTCCAATTGAATGCCATCGTGTGGATGGTTCTTAGCGCAGAAGTATCCGTTTTTCCTTCTCACGGTGTAACCAGGACGTTTTCTTTTCGAGTCTGTATGGACATTTTATATGCTGTTTAATCATATACATATATAAATGGGTAGCTGATTAGAATGTAACTATCCAGGAAAACAGAACCACAAAACATCTGCATAATAACAAATCAAGAACATCACCAACGCTGCTATTTTTCCAGTTAATGGTTCGAGATTGAGAAAACCCAAATGGTTTATTCGTAGGTTCTTGGTCTTTTTCTTACTGATACCTGCAATTTTGTCAAACTGGTTGCAGGCATGAAATCGCATTAATTAAACCTTGTTTTGGGTTCTTGAGTAGTGCTATCTATAAAATAATACGAAACTCGCAACAATAGAAGGCTCCCAGGTCACTATGGAAGAGCCACCCCCACCTGCGGTGTTACCGTCATCTGAGGATACCTCCATTGTTAGCTCGCATAGCTTTGTCAATGCACCCCCAACTGTCCCTGTTGGTTTAGATGCTTCCACTCCTCAAATTTCTACGCCGGGAATTAAAAAACCTGGCTTAACCACCCCTGTACCACCCGAAGCAGCTCCTCTAACTGCGTCATTAGTTGCTGCTTCTGCTGGCATGCCTCCTGCAGTTGTACCTTCCTTTGTCCGCCCAGCTATAGTAGCCCATCCATCGGTTATGCCCCCGCCCAGCATGCCTCTTGCAGCCTTGCCCATGCCAGTTGCTTCTGTTGTTGCGCCACATTTCCCCCCTTCAACCCCAAACGATAATTCTATTACTCCATCTATGCCCGTTCCTACTCCCATTGTAGCCTCATCTAGTGTGCCCCCTTCAGTCACAATTCCTGGAATTGCTCCCCTACCATTTATTGCTCCTATTCCTGTGCCTTTGTCGCGGCCTGTAGCTCCATCGCCCTTTATGCCTCCTGTTCGTCCCTTAGGAGCTAGTGTTTCCGTTGCAATGGATGTAGACAATACTGATGAACAAGATCAAGATGCAGACAACAAGGGAGAAAGTCCTTCGTCAAGTCCCGACCATCCAGAAGATCCTTCGGCAGCTGAGTATGAAATTACAGAGGAGAGCAGAAAGGTTCGAGAGAGGCAAGAACAGGCTATTCAGGAGCTTCTGCTGCGGAGGCGTGCCTATGCATTGGCAGTCCCTACCAATGACTCTTCGGTGCGTGCTCGTCTTCGTCGCCTGAACGAACCTATTACCCTGTTCGGTGAGAGGGAGATGGAGAGACGTGACCGGCTCAGAGCGCTCATGGCGAAGCTTGATGCGGAGGGACAGCTTGAGAAGCTCATGAAGGTTCAGGAAGAAGAAGAAGCAGCTGCCAATGTTGATGCTGAAGAGGTCCAGGAAATGGAAGGGCCTCAGGTATATCCTTTTTATACTGAAGGCTCCCAGGAGCTGCTAAAAGCTCGGACTGAGATCACGAAATTCTCACTCCCTCGGGCAGTCTCGAGGTTACAGAGAGCCAGGAGAAAGAGAGAGGATCCTGATGAGGACGAGGATGAAGAGTTGAAATGTGTGTTGCAGCAGTCAGCCCAGATCAATATGGATTGCAGTGAAATTGGAGATGATAGACCTCTTTCTGGATGTGCGTTTTCTTCAGATGGAACTCTGCTAGCAACGAGTGCTTGGAGTGGTGTCACAAAATTATGGAGTGTACCAAACATAAATAAGGTTGCTACTTTAAAGGGACATACAGAACGAGTTACTGATGTGGCATTTTCTCCTACAAACTGCCATTTAGCAACTGCCTGTGCTGATCGTACTGCAATGCTATGGAATTCTGAGGGAGTTCTGATGAAAACATATGAAGGCCATTTGGATCGTCTTGCTCGTCTCGCATTTCACCCATCTGGGCTATATCTGGGCACTGCTAGCTTTGACAAAACGTGGAGATTGTGGGATGTTAACACGGGTATTGAATTGCTCTTGCAAGAAGGCCACAGCCGAAGTGTGTATGGGATTTCTTTTCAGTGTGATGGTTCATTAGCAGCAACCTGTGGATTAGATGGATTGGCACGCGTTTGGGATCTTCGTACGGGAAGAAGCATTCTTGCTCTAGAAGGCCATGTGAAACCAGTCCTTGGCATAGATTTCTCGCCAAATGGTTACCACTTAGCAACTGGTAGTGAGGATCATACCTGTCGCATTTGGGACCTAAGGAAGAGGCAATCAGTATATATCATACCCGCTCATTCTCACCTTGTTTCACAGGTCAAATTTGAACCACAGGAGGGATATTTCTTGGTCACTGCTTCATATGACAGTACTGCTAAGGTGTGGTCAGCACGGGACTTCAAATCCATCAAGGTATTGGCAGGACATGAAGCAAAGGTTACGAGTGTGGATATTACAGCAGATGGGCAATATATTGCCACTGTGTCACATGATCGTACCATAAAACTTTGGTCCAGCAAAAACAACACTAATGATATGAATATTGGTTGACACCATTACAGATGGGCGATATGTTTCCAGTGTCACATGATCGCACTAGAAAACTTTAGTCCAGCAAAACCATTAGCAACACTAATGATATGAATACTGGTTGACATCATGATGGGTAGTGTTGTTATGTCGTTTCTGTATGCGATGTGAATGAAATTTGTTGCTGCCTTCGCAGTATTCAAAACAAAACATTGAAGCAAATGTTGCTGATCCAACGTTTACAGTACTTAATATTTTTATAATGCAATCTGCGTTGAGAACATTCTTTTTTCTGAGATATCCATGACATGTATATGATAAGCGGGCAGTTAGGCTTCGCTTTCAGTCTTGCTTCAGCTACTCGGTTGGCAAAAATTTTGTGAAGGGAAAGGGCAACACATGACTGGACATAATTTTAAAATATGATGCAGAACTTTTGTTCACGAATGCCTCGTGTACTTCATACAAATTACATTTGGAATGCTAAGATGTAAATCTACTGCTACTTGAAAAAATGCTTCTTGAACTGATGTGCTCCAGGAA

Ace file of the UniGene sp_v3.0_unigene1330

Annotations

Source	Descriptions	Term	Type	e value	Identity
AutoFact	U4/U6 small nuclear ribonucleoprotein PRP4-like protein [Arabidopsis thaliana] sp\|O22212.1\|PRP4_ARATH RecName: Full=U4/U6 small nuclear ribonucleoprotein PRP4-like protein; AltName: Full=Protein EMBRYO DEFECTIVE 2776 gb\|AAB84332.1\| putative small nuclear	-	-	0.0	56%
FL-Next	tr=Putative uncharacterized protein; Picea sitchensis (Sitka spruce) (Pinus sitchensis).	-	-	0.0	31%

Source	Gene names
Sma3	At2g41500; CHLREDRAFT_120649; EMB2776; GSVIVT00025331001; LOC_Os03g23909; LOC_Os03g23929; MICPUCDRAFT_2506; MICPUN_67596; OSTLU_43856; Os03g0355200; OsI_02814; OsI_11600; OsJ_10872; Ot14g00400; PHYPADRAFT_119600; POPTRDRAFT_801796; PRP4; RCOM_0255520; SB2

Source	GOs	Term	Type	Identity
Sma3	nuclear speck	GO:0016607	Cellular Component	-
Sma3	ribonucleoprotein complex	GO:0030529	Cellular Component	-
Sma3	nucleic acid binding	GO:0003676	Molecular Function	-
Sma3	cell fate determination	GO:0001709	Biological Process	-
Sma3	RNA splicing	GO:0008380	Biological Process	-
Sma3	embryo sac egg cell differentiation	GO:0009560	Biological Process	-

Source	InterPros	Term	Type	Identity
Sma3	Protein kinase, catalytic domain	IPR000719	-	-
Sma3	WD40 repeat	IPR001680	-	-
Sma3	Splicing factor motif	IPR003648	-	-
Sma3	Protein of unknown function DUF1005	IPR010410	-	-
Sma3	Pre-mRNA processing factor 4 (PRP4)-like	IPR014906	-	-
Sma3	WD40/YVTN repeat-like-containing domain	IPR015943	-	-
Sma3	Protein kinase, ATP binding site	IPR017441	-	-
Sma3		IPR017442	-	-
Sma3	WD40-repeat-containing domain	IPR017986	-	-
Sma3	WD40 repeat, conserved site	IPR019775	-	-
Sma3		IPR019782	-	-

Source	Species	ID	Description	Identity
ATG	Arabidoptis thaliana	AT2G41500.1	LIS, EMB2776 WD-40 repeat family protein / small nuclear ribonucleoprotein Prp4p-related chr2:17304319-17306855 REVERSE LENGTH=554	60%
RefSeq	Arabidopsis thaliana	NP_181681.1	U4/U6 small nuclear ribonucleoprotein PRP4-like protein [Arabidopsis thaliana]	60%
RefSeq	Populus trichocarpa	XP_002308919.1	predicted protein [Populus trichocarpa]	66%

Full-Lengther Next Prediction

Fln status: Complete

Fln database: coniferopsida.fasta

Fln subject: A9NPC1

Fln msg: your sequence is longer than subject: 687 - 314

Fln protein: MEEPPPPAVLPSSEDTSIVSSHSFVNAPPTVPVGLDASTPQISTPGIKKPGLTTPVPPEAAPLTASLVAASAGMPPAVVPSFVRPAIVAHPSVMPPPSMPLAALPMPVASVVAPHFPPSTPNDNSITPSMPVPTPIVASSSVPPSVTIPGIAPLPFIAPIPVPLSRPVAPSPFMPPVRPLGASVSVAMDVDNTDEQDQDADNKGESPSSSPDHPEDPSAAEYEITEESRKVRERQEQAIQELLLRRRAYALAVPTNDSSVRARLRRLNEPITLFGEREMERRDRLRALMAKLDAEGQLEKLMKVQEEEEAAANVDAEEVQEMEGPQVYPFYTEGSQELLKARTEITKFSLPRAVSRLQRARRKREDPDEDEDEELKCVLQQSAQINMDCSEIGDDRPLSGCAFSSDGTLLATSAWSGVTKLWSVPNINKVATLKGHTERVTDVAFSPTNCHLATACADRTAMLWNSEGVLMKTYEGHLDRLARLAFHPSGLYLGTASFDKTWRLWDVNTGIELLLQEGHSRSVYGISFQCDGSLAATCGLDGLARVWDLRTGRSILALEGHVKPVLGIDFSPNGYHLATGSEDHTCRIWDLRKRQSVYIIPAHSHLVSQVKFEPQEGYFLVTASYDSTAKVWSARDFKSIKVLAGHEAKVTSVDITADGQYIATVSHDRTIKLWSSKNNTNDMNIG*

Protein Length: 688

Fln nts: GATCAACAATTGCTTTTTATCATCGCCGCGAAGTCCAGGGTACGTTTAATTCGCTTTTGTACAAGGAAGCCTGCGTGCTTTTGTCGATGGTAATCTATTCTCCTTGGGAGGTGCCCCAAATTAATGTCAATATCAACAGGAGTGGAATTTTCGTTTCCAGCAGGCGCGAAGAGGGAATAACTAAGATAGTAGCTCTGCAAGCACTGTGAGTAGGAAAATATGTCTCTGTACATATCTTTGTTGATGTGTAAAGGATGTGTGGAAAATGGGTCCAATTGAATGCCATCGTGTGGATGGTTCTTAGCGCAGAAGTATCCGTTTTTCCTTCTCACGGTGTAACCAGGACGTTTTCTTTTCGAGTCTGTATGGACATTTTATATGCTGTTTAATCATATACATATATAAATGGGTAGCTGATTAGAATGTAACTATCCAGGAAAACAGAACCACAAAACATCTGCATAATAACAAATCAAGAACATCACCAACGCTGCTATTTTTCCAGTTAATGGTTCGAGATTGAGAAAACCCAAATGGTTTATTCGTAGGTTCTTGGTCTTTTTCTTACTGATACCTGCAATTTTGTCAAACTGGTTGCAGGCATGAAATCGCATTAATTAAACCTTGTTTTGGGTTCTTGAGTAGTGCTATCTATAAAATAATACGAAACTCGCAACAATAGAAGGCTCCCAGGTCACT_-_ATGGAAGAGCCACCCCCACCTGCGGTGTTACCGTCATCTGAGGATACCTCCATTGTTAGCTCGCATAGCTTTGTCAATGCACCCCCAACTGTCCCTGTTGGTTTAGATGCTTCCACTCCTCAAATTTCTACGCCGGGAATTAAAAAACCTGGCTTAACCACCCCTGTACCACCCGAAGCAGCTCCTCTAACTGCGTCATTAGTTGCTGCTTCTGCTGGCATGCCTCCTGCAGTTGTACCTTCCTTTGTCCGCCCAGCTATAGTAGCCCATCCATCGGTTATGCCCCCGCCCAGCATGCCTCTTGCAGCCTTGCCCATGCCAGTTGCTTCTGTTGTTGCGCCACATTTCCCCCCTTCAACCCCAAACGATAATTCTATTACTCCATCTATGCCCGTTCCTACTCCCATTGTAGCCTCATCTAGTGTGCCCCCTTCAGTCACAATTCCTGGAATTGCTCCCCTACCATTTATTGCTCCTATTCCTGTGCCTTTGTCGCGGCCTGTAGCTCCATCGCCCTTTATGCCTCCTGTTCGTCCCTTAGGAGCTAGTGTTTCCGTTGCAATGGATGTAGACAATACTGATGAACAAGATCAAGATGCAGACAACAAGGGAGAAAGTCCTTCGTCAAGTCCCGACCATCCAGAAGATCCTTCGGCAGCTGAGTATGAAATTACAGAGGAGAGCAGAAAGGTTCGAGAGAGGCAAGAACAGGCTATTCAGGAGCTTCTGCTGCGGAGGCGTGCCTATGCATTGGCAGTCCCTACCAATGACTCTTCGGTGCGTGCTCGTCTTCGTCGCCTGAACGAACCTATTACCCTGTTCGGTGAGAGGGAGATGGAGAGACGTGACCGGCTCAGAGCGCTCATGGCGAAGCTTGATGCGGAGGGACAGCTTGAGAAGCTCATGAAGGTTCAGGAAGAAGAAGAAGCAGCTGCCAATGTTGATGCTGAAGAGGTCCAGGAAATGGAAGGGCCTCAGGTATATCCTTTTTATACTGAAGGCTCCCAGGAGCTGCTAAAAGCTCGGACTGAGATCACGAAATTCTCACTCCCTCGGGCAGTCTCGAGGTTACAGAGAGCCAGGAGAAAGAGAGAGGATCCTGATGAGGACGAGGATGAAGAGTTGAAATGTGTGTTGCAGCAGTCAGCCCAGATCAATATGGATTGCAGTGAAATTGGAGATGATAGACCTCTTTCTGGATGTGCGTTTTCTTCAGATGGAACTCTGCTAGCAACGAGTGCTTGGAGTGGTGTCACAAAATTATGGAGTGTACCAAACATAAATAAGGTTGCTACTTTAAAGGGACATACAGAACGAGTTACTGATGTGGCATTTTCTCCTACAAACTGCCATTTAGCAACTGCCTGTGCTGATCGTACTGCAATGCTATGGAATTCTGAGGGAGTTCTGATGAAAACATATGAAGGCCATTTGGATCGTCTTGCTCGTCTCGCATTTCACCCATCTGGGCTATATCTGGGCACTGCTAGCTTTGACAAAACGTGGAGATTGTGGGATGTTAACACGGGTATTGAATTGCTCTTGCAAGAAGGCCACAGCCGAAGTGTGTATGGGATTTCTTTTCAGTGTGATGGTTCATTAGCAGCAACCTGTGGATTAGATGGATTGGCACGCGTTTGGGATCTTCGTACGGGAAGAAGCATTCTTGCTCTAGAAGGCCATGTGAAACCAGTCCTTGGCATAGATTTCTCGCCAAATGGTTACCACTTAGCAACTGGTAGTGAGGATCATACCTGTCGCATTTGGGACCTAAGGAAGAGGCAATCAGTATATATCATACCCGCTCATTCTCACCTTGTTTCACAGGTCAAATTTGAACCACAGGAGGGATATTTCTTGGTCACTGCTTCATATGACAGTACTGCTAAGGTGTGGTCAGCACGGGACTTCAAATCCATCAAGGTATTGGCAGGACATGAAGCAAAGGTTACGAGTGTGGATATTACAGCAGATGGGCAATATATTGCCACTGTGTCACATGATCGTACCATAAAACTTTGGTCCAGCAAAAACAACACTAATGATATGAATATTGGTTGA___CACCATTACAGATGGGCGATATGTTTCCAGTGTCACATGATCGCACTAGAAAACTTTAGTCCAGCAAAACCATTAGCAACACTAATGATATGAATACTGGTTGACATCATGATGGGTAGTGTTGTTATGTCGTTTCTGTATGCGATGTGAATGAAATTTGTTGCTGCCTTCGCAGTATTCAAAACAAAACATTGAAGCAAATGTTGCTGATCCAACGTTTACAGTACTTAATATTTTTATAATGCAATCTGCGTTGAGAACATTCTTTTTTCTGAGATATCCATGACATGTATATGATAAGCGGGCAGTTAGGCTTCGCTTTCAGTCTTGCTTCAGCTACTCGGTTGGCAAAAATTTTGTGAAGGGAAAGGGCAACACATGACTGGACATAATTTTAAAATATGATGCAGAACTTTTGTTCACGAATGCCTCGTGTACTTCATACAAATTACATTTGGAATGCTAAGATGTAAATCTACTGCTACTTGAAAAAATGCTTCTTGAACTGATGTGCTCCAGGAA

Fln Alignment:

Contig1330___GDDRPLSGCAFSSDGTLLATSAWSGVTKLWSVPNINKVATLKGHTERVTDVAFSPTNCHLATACADRTAMLWN-SEGVLMKTYEGHLDRLARLAFHPSGLYLGTASFDKTWRLWDVNTGIELLLQEGHSRSVYGISFQCDGSLAATCGLDGLARVWDLRTGRSILAL-EGHVKPVLGIDFSPNGYHLATGSEDHTCRIWDLR--KRQSVYIIPAHSHLVSQVKFEPQEGYFLVTASYDSTAKVWSARDFKSIKVLAGHEAKVTSVDITADGQYIAT--VSHDRTIKLWSSKN
A9NPC1______________GHKRAVSSVKFSADGKLLGSASADKSVRIWSAGDGSAKRELQGHAEGVSDMAWSSDSHYVCSASDDKTLRIWDVHTGDCIKTLKGHTNYVFCVNFNPQSNLIVSGSFDETVRIWDVRTGKCLKVLPAHSDPVTAVHFNRDGSLIVSSSYDGLCRIWDSATGHCLKTLIDDENPPVSFVNFSPNGKFILAGTLDNTLRLWNFATGKFLKTYTGHVNSKYCISSTFSVTNGKYIVSGSEDNCVYLWDLQARNIVQKLEGHTDTVISVSCHPTENKIASGALENDKTLRIWVQEN

SNPs (tot: 2)

Position	A %	C %	G %	T %	Probability
3217	12		87		1.0
3248	16		83		0.999991

SSRs (tot: 1)

Start position	End position	Sequence	Length
1615	1627	GAA GAA GAA GAA G	13

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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