Transcript
      Expression
      Mutation
      Predicted ORFs
      Variation
      References

ZF_LNC001598

Transcript Name: lnc1_podxl
Type: lincRNA
Genomic Location: chr4:10826620-10836873
Nearest Gene: podxl (NM_001045016)


lnc1_podxl
Exons
1082662010836873






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 1.65 0.83 0.03 -0.13 0.15 0.17 0.44 0.3 0.95 1.8 0.54 0.18 0.42 0.7 0.87



Mutant Information


ChromosomeMutant PositionZFIN ID

No retroviral insertion mapping detected




Predicted Open Reading Frames


ORFRangeSequence
1. 33-71 MYLSRICPYVFSF
2. 58-96 MFLVFNTLIYYKM
3. 112-183 MLFNLCINVPLKEDEKMLKLMKEF
4. 226-336 MLCFHWIYVICIIINHFCNRVSTGFIKSILKLFKTLL
5. 358-393 MNEISGLHKAKR
6. 362-424 MKFQACTRLNVKDFLIAKLKP
7. 485-571 MSKWLKIKRFVKPLLKFIVDDWMGVGPIV
8. 543-602 MIGWVLAQLCKALNAREKNN
9. 583-648 MHVKKTIKTSLKLLKTYNTIFQ
10. 827-868 MNGDIIIMTVINSC
11. 890-928 MEKTGVASWFPLG
12. 877-954 MFLRYGKDRCGFLVSLGMKLWRGRGG
13. 962-1024 MTGTVGMTEASVYLYSSISFS
14. 1103-1165 MAYTHTHTHTNLASLCSGFES
15. 1307-1423 MMTMLFLHLFNFYIICALSCLYMLAIYYIFCRCTAYKNT
16. 1363-1428 MFIHACNLLYFLQMHSIQKHLT
17. 1467-1496 MISIVQYISH
18. 1463-1612 MYDIYSAIYIALKQNITMSYFFYIVQNRDNIFQSFLLHFILFCCMFWTFP
19. 1617-1685 MPMFCDTLFFVVFFSYLTFSICI
20. 1930-1959 MYAFFSTNLT
21. 1746-1967 MCGILCSFISVGLLLSLCTLICSQSRSWYCCTPNYICVTLRLNQAYLQLWGKYKNKRPLEKNVCIFLYKFNIIQ
22. 2041-2070 MFLSTFFQFF
23. 2178-2264 MISIILELSHLLTTFNLFLKFFKAFSPNI
24. 2407-2445 MRSVNQLPLVDNK
25. 2547-2627 MCFNSGKTTDLHKQIVLFTCLHLKCEN
26. 2642-2671 MTLIIVLYVS
27. 2731-2763 MTYFIRRLLAV
28. 3126-3167 MRNQVSQVVSELDW
29. 3223-3258 MSKPLNPQREQS
30. 3264-3305 MHNQVSLMVSELDW
31. 3600-3713 MGRFSKPVLSIGIYQTLKRYIAHHKLYGIVDNHLPSHQ
32. 3782-3862 MLKGAVDERLPMNQKVWISRKHCKLFG
33. 4097-4156 MYVQDRISTHMTSNALWRNG
34. 4270-4299 MTSNALWRRG
35. 4137-4313 MPSGAMVNHLPVNQNVLGSNPTNAGSLHFFLADINICTRPYINTYDIKCPLAQRLIICL
36. 4280-4411 MPSGAEVNHLPVNQNVLGSNPTNAGSLHFFLADINICTRKYNNI
37. 4490-4519 MQVLFTFPYK
38. 4673-4738 MLTVSAIVALLGEHKLSMAKAV
39. 4932-4961 MKGEDETFLP
40. 4976-5005 MYSRGYATFY
41. 4945-5025 MKRSSPDLRGHVQQGLCYFLLKKKLAL
42. 4992-5123 MLLFTKKKISSIKIRTPVPSLPVSVTITSFLEGLTLQKGSDGNR
43. 5527-5589 MSDSDRATCKQSCLNKQESSA
44. 5628-5666 MNLTATEVQRIKT
45. 5677-5709 MQEKYCTVTYR
46. 5669-5794 MRKCRRNTVQLLTGESLFTAFLSFISACCGSFSCRTTSNVVY
47. 5784-6011 MLFINTKTLSLSCHLQFMCLKLYTRAAAAAPKQTSHCQHPEAVIQSERETTCATWWSGWRTALQCLTGRVTVLKSC
48. 5936-6016 MRHLVERMENCTTVSNRTSYSVKVLLI
49. 6119-6169 MSCAKYVKLWSSAPSCG
50. 6135-6194 MSSCGRQRPLVDDELLLFRS
51. 6124-6219 MCQICQAVVVSALLWMMSYCCSDHELEVFSRR
52. 6194-6235 MNSRCSVAGKRAEK
53. 6235-6486 MNKTFKSQSIIYCSVSTCKATCVFSSLGKFILNDTVKQIKRVQLKCARCVNSQNSNDICSCASFMSMYVFVYLFAVIFIMLGHS
54. 6369-6578 MCSVCKQSKLQRYLFMCKFYVDVCFCLLICSDIHNAWAQLKPQFHTVVSVFADLSAFRVHLVYRFRHRNA
55. 6574-6645 MHEIRSVFQLRLVDSKCICINVQH
56. 6578-6649 MRSDQCFSSAWWTVSVSVLMSNTS
57. 6690-6725 MHFHNLINIISW
58. 6852-6923 MLSLIKTIIHFFQIFFSHSCKKSN
59. 6966-7100 MYILPLRIAGLHHANLRLRAHKSIKKTITLLILKGKIKCTCFFVH
60. 7079-7144 MYMLFCSLSTALMQSCIWNSIQ
61. 7193-7222 MITTSVGMDQ
62. 7123-7320 MYLEFNSIMQHLLNNLMFPSFLLHDYNFCWNGSVTVLAIQSWGPTELHILHVKNRAFQNFQSIVLN
63. 7388-7447 MKIRTVKTRLIGSTFLVANN
64. 7450-7518 MKLLSLYIFENYANMSTIIDTFK
65. 7484-7546 MQICPLLLTHLNDTATNVFFS
66. 7518-7559 MTLQQMFFSLRGFV
67. 7756-7803 MFAKKVLLERIVIYLD
68. 7892-7924 MSTVSAYSDSV
69. 7936-7998 MTLTGFPSLCIIAHFEASHEQ
70. 7998-8087 MSDVNATFRIKITSLNNKVCFYFNFALVLD
71. 8147-8209 MSPLSLLCLLFLGYQHYSQHI
72. 8116-8217 MEMHLACDQSDVSTKLALFTFFRLPTLQSAYLTT
73. 8220-8276 MEMYPIRNCDFSFLFCANT
74. 8323-8394 METQLLKNEEMMVKIQLCNHTSTK
75. 8394-8426 MIHWIYSIFLR
76. 8734-8835 MLCFHWIYVICIIINHFCRCNLISTVKWDVSFLA
77. 8814-8894 MGRLVFGINKQLSFSWTFCVCGGSIRK
78. 8894-8929 MNAENDNYHDSY
79. 8898-8996 MLKMIIIMTVINSCYGLSFSDMEKTGVASWFPL
80. 8941-9033 MVYLSQIWKRQVWLPGFPCDEIIERTGRVKG
81. 9051-9116 MTKVSVYLFIYSFIHLFIYLSI
82. 9375-9407 MHCIQKDLMQP
83. 9350-9478 MTLIIFSADALHTKRPDAALIVTLLCKYLPVLSPSFTLFCCMF
84. 9424-9513 MQVFTSPFSFIYTVLLHVLDILLCVSECSD
85. 9646-9837 MCGILCSFISVGLLLSLRTLIFSQSRSWYCCTPNYICVTLRLAHNRAYLQLWEKLCVFLSKFKI
86. 9528-9845 MPVFCDNLFFFIFDFFYLYLKGSSSPRDDFLPQCPDPEIYVWNSLLIYQCGPAPLPAHSHFFTVPILVLLHPKLHLCNSQTCTQPSIPTAVGKVMCFSLQIQNINT
87. 9963-9995 MSIFKTLHTKL
88. 10212-10244 MQLTIGFRTVY
89. 10202-10258 MTTNATYDWIPYCILGLPR
90. 10195-10302 MIYDNKCNLRLDSVLYIRLATLDGVDGDTGFKTQQR
91. 10391-10450 MGNIILNNLLKTRACTIIII
92. 10432-10488 MHYNYYLNIATKHHISFIT

Variant Information


Variant PositionrsIDReferenceAlternate

No variation reported in dbSNP within the exonic region of the transcript



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: