SHK249
Library SH
(Link to library)
Clone ID SHK249
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U14653-1
Original site URL
Representative seq. ID
(Link to Original site)
Representative DNA sequence
>SHK249 (SHK249Q) /CSM/SH/SHK2-C/SHK249Q.Seq.d/
ACTGTTGGCCTCCTGGCTATTTTTTATAAATTAAAAAATTTTTGAACATCACAAGCACTT
CCATCAATAATAATAATAAATAATATATGTACATATAATAATAAAAAAAAAAXXXXXXXX
XX
sequence update 2002.10.25
Translated Amino Acid sequence
tvgllaifyklknf*TSQALPSIIIINNICTYNNKKK---


Translated Amino Acid sequence (All Frames)
Frame A:
tvgllaifyklknf*TSQALPSIIIINNICTYNNKKK---


Frame B:
llaswlffin*kifehhkhfhq****iiyvhiiikk---


Frame C:
cwppgyfl*ikkflnitstsinnnnk*ymyi***kk---


Homology vs CSM-cDNA

Score E
Sequences producing significant alignments: (bits) Value

SHK249 (SHK249Q) /CSM/SH/SHK2-C/SHK249Q.Seq.d/ 129 1e-29
SSD508 (SSD508Q) /CSM/SS/SSD5-A/SSD508Q.Seq.d/ 44 4e-04
SSB183 (SSB183Q) /CSM/SS/SSB1-D/SSB183Q.Seq.d/ 44 4e-04
SSD854 (SSD854Q) /CSM/SS/SSD8-C/SSD854Q.Seq.d/ 40 0.007
VSJ625 (VSJ625Q) /CSM/VS/VSJ6-B/VSJ625Q.Seq.d/ 38 0.027
VSA888 (VSA888Q) /CSM/VS/VSA8-D/VSA888Q.Seq.d/ 38 0.027
VHN329 (VHN329Q) /CSM/VH/VHN3-B/VHN329Q.Seq.d/ 38 0.027
VHM579 (VHM579Q) /CSM/VH/VHM5-D/VHM579Q.Seq.d/ 38 0.027
VFE450 (VFE450Q) /CSM/VF/VFE4-C/VFE450Q.Seq.d/ 38 0.027
SSM657 (SSM657Q) /CSM/SS/SSM6-C/SSM657Q.Seq.d/ 38 0.027

own update 2004.12.25
Homology vs DNA

Score E
Sequences producing significant alignments: (bits) Value N

BP514361|BP514361.1 Hydra magnipapillata cDNA, clone:hydmg014secrev_008. 48 0.041 1
CT033818|CT033818.7 Zebrafish DNA sequence *** SEQUENCING IN PROGRESS *** from clone CH211-209M18. 48 0.041 1
BX769175|BX769175.12 Zebrafish DNA sequence from clone DKEY-229K5 in linkage group 3. 48 0.041 1
BZ350430|BZ350430.1 ht56c07.g1 WGS-SbicolorF (JM107 adapted methyl filtered) Sorghum bicolor genomic clone ht56c07 5', DNA sequence. 32 0.11 3
BZ350960|BZ350960.1 ht62h04.g1 WGS-SbicolorF (JM107 adapted methyl filtered) Sorghum bicolor genomic clone ht62h04 5', DNA sequence. 32 0.12 3
CW043777|CW043777.1 104_279_10508575_114_30273 Sorghum methylation filtered library (LibID: 104) Sorghum bicolor genomic clone 10508575, genomic survey sequence. 32 0.12 3
CW183669|CW183669.1 104_599_11164737_116_36675_037 Sorghum methylation filtered library (LibID: 104) Sorghum bicolor genomic clone 11164737, genomic survey sequence. 32 0.12 3
AC048354|AC048354.1 Homo sapiens chromosome 16 clone CTC-345H14, LOW-PASS SEQUENCE SAMPLING. 46 0.16 1
DX095524|DX095524.1 AU_BAC007B1C09_T7 CHORI212 Ictalurus punctatus genomic 5', genomic survey sequence. 46 0.16 1
CZ785674|CZ785674.1 OC__Ba0148M02.f OC__Ba Oryza coarctata genomic clone OC__Ba0148M02 5', genomic survey sequence. 46 0.16 1
dna update 2006. 6. 8
Homology vs Protein

***** No hits found ******

Lambda K H
0.318 0.134 0.401

Gapped
Lambda K H
0.267 0.0410 0.140

Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 3101297
Number of Hits to DB: 129,558,950
protein update 2009. 5.29
PSORT

psg: 0.93 gvh: 0.28 alm: 0.47 top: 0.67 tms: 0.00 mit: 0.39 mip: 0.00
nuc: 0.00 erl: 0.00 erm: 0.40 pox: 0.00 px2: 0.00 vac: 0.00 rnp: 0.00
act: 0.00 caa: 0.00 yqr: 0.00 tyr: 0.00 leu: 0.00 gpi: 0.00 myr: 0.00
dna: 0.00 rib: 0.00 bac: 0.00 m1a: 0.00 m1b: 0.00 m2 : 0.00 mNt: 0.00
m3a: 0.00 m3b: 0.00 m_ : 1.00

44.0 %: nuclear
32.0 %: cytoplasmic
20.0 %: mitochondrial
4.0 %: vacuolar

>> prediction for SHK249 is nuc

5' end seq. ID SHK249F
5' end seq.
>SHK249F.Seq
ACTGTTGGCCTCCTGGCTATTTTTTATAAATTAAAAAATTTTTGAACATCACAAGCACTT
CCATCAATAATAATAATAAATAATATATGTACATATAATAATAAAAAAAAAANNNNNNNN
NN
Length of 5' end seq. 122
3' end seq. ID -
3' end seq. -
Length of 3' end seq. -
Connected seq. ID -
Connected seq. -
Length of connected seq. -
Full length Seq ID -
Full length Seq. -
Length of full length seq. -