Transcript
      Expression
      Mutation
      Predicted ORFs
      Variation
      References

ZF_LNC001577

Transcript Name: vrkk1
Type: lincRNA
Genomic Location: chr4:5326983-5328832
Nearest Gene: mapk11 (NM_001002095)


vrkk1
Exons
53269835328832




Expression Information

log10FPKM values for lncRNA in different stages
  2-4 cell 1-K cell Dome Shield Bud 1 dpf 2 dpf 3 dpf 5 dpf Adult Heart Blood Brain Kidney Liver
log10FPKM values 0.6 0.98 0.2 -0.78 -1.61 0.89 -2.46 0.01 -2.78 0 -1.8 0 -2.93 0.84 0



Mutant Information


ChromosomeMutant PositionZFIN ID

No retroviral insertion mapping detected




Predicted Open Reading Frames


ORFRangeSequence
1. 310-363 MCVVFDQRFGFVTQIILV
2. 442-477 MLHKLVLELGAD
3. 414-635 MHIYKVNKLYVAQVSPGTRSGLILRPNSIETVHSLYHSACACLRVPDRRSVYCWRRIYISCQSLRRHTFAEELL
4. 701-748 MIIMLKQKIEDIYWDK
5. 953-985 MHLISVVCSLT
6. 985-1017 MKLIIRRRLIM
7. 1030-1095 MMDVSLSAPALRTESVDAASGK
8. 1079-1138 MQHLVNNLLMCCFVLLDVFW
9. 1128-1238 MSSGDGSTLISVHYAAHVVSLSSLMDSVQLMQLSETR
10. 1264-1308 MCRIWKYSFTCELKP
11. 1308-1388 MRKRKVVLHHILTDEALTLHSLPIMST
12. 1450-1491 MISEAERFPSGIMF
13. 1538-1609 MTVIRKNCSIYDCQSSQIELITVT
14. 1569-1640 MTVRAVRLSSLLSPDLQIINYCCR
15. 1808-1909 MLMCVCVRRTDTVRSMRSALGLIRILRQAESTNI
16. 1695-1973 MASNYYEKPLMEINGYSIIYIPLSSCPYLLLLKVRKTACLCACVCGAQTQSEACGLHLVSFAYCDRQRAQTSKVINVSALMFKQVSKRSDYSY
17. 2073-2114 MINKTTRKSLSALD
18. 2156-2263 MLKAVFHIFILLYLFLFAGRKVIYAVEVRIISPPEY
19. 2226-2324 MQLKSELSALLNISNPFPPQFLFNEKFFFSTHF
20. 2296-2364 MKSFFFLHISNHNSFNNSFLITD
21. 2381-2452 MMTVHYIFKYKHSNSKCDSNALLG
22. 2616-2723 MLLKFLALLNIIWEILIFFKFSGALIILTSTNNRLE
23. 1695-1952 MASNYYEKPLMEINGYSIIYIPLSSCPYLLLLKVRKTACLCACVCGAQTQSEACGLHLVSFAYCDRQRAQTSKVINVSALMFKQVS

Variant Information


Variant PositionrsIDReferenceAlternate
5327222 rs40786057 C G
5327282 rs40707072 C A
5327285 rs41152121 A T
5327295 rs40915011 T G
5327296 rs41067417 A G
5327323 rs40913678 C A
5327395 rs41185418 C T

References

lncRNA has been predicted by:

Pauli A, Valen E, Lin MF, Garber M, Vastenhouw NL, Levin JZ, Fan L, Sandelin A, Rinn JL, Regev A, Schier AF
Systematic identification of long noncoding RNAs expressed during zebrafish embryogenesis.
Genome Research (2012) 22:577-591
PMID: 22110045

Expression information has been derived from:

Retroviral insertion lines mapping to lncRNA loci has been derived from: