AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene67987


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene67987.t1 MTR_7g062720 65.909 132 45 0 1 132 1 132 9.36e-60 190
MS.gene67987.t1 MTR_5g061150 62.205 127 48 0 20 146 10 136 1.12e-47 158
MS.gene67987.t1 MTR_4g037355 58.824 136 35 5 151 285 1 116 1.10e-41 142
MS.gene67987.t1 MTR_4g112730 71.831 71 18 1 138 208 1 69 1.12e-26 102
MS.gene67987.t1 MTR_1g036690 58.537 82 27 3 278 358 5 80 1.04e-22 90.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 67 sgRNAs with CRISPR-Local

Find 84 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTTGAGGCTCTTAAAATTTC+TGG 0.064868 6.4:-11277038 MS.gene67987:CDS
TTCGGCATTTAAATGAATTT+TGG 0.166319 6.4:+11276986 None:intergenic
CACTTCAAAATAAGGATAAA+AGG 0.234592 6.4:-11276149 MS.gene67987:CDS
CCAACAATCACTTCAAAATA+AGG 0.244294 6.4:-11276157 MS.gene67987:CDS
TATGGAAGGGGACGTGGTTT+TGG 0.259444 6.4:-11276384 MS.gene67987:CDS
AAATTGTCCCAAAGATCTTT+TGG 0.267031 6.4:+11276840 None:intergenic
AATTTCTGGAAATAATTATC+TGG 0.276112 6.4:-11277024 MS.gene67987:CDS
TAGAAGATCCAAAAGATCTT+TGG 0.283634 6.4:-11276848 MS.gene67987:CDS
TGTGTTGCTACATTCACTTC+TGG 0.294995 6.4:+11276474 None:intergenic
TATAGGTGGGGTTCTATTCC+TGG 0.331534 6.4:+11275995 None:intergenic
TAAAGATCAACAAGATGTTT+TGG 0.333763 6.4:+11276180 None:intergenic
TGAAGATGATTATGGTAATA+TGG 0.338642 6.4:-11276097 MS.gene67987:CDS
CTGGAAATAATTATCTGGCT+TGG 0.347827 6.4:-11277019 MS.gene67987:CDS
TGGAAATAATTATCTGGCTT+GGG 0.353242 6.4:-11277018 MS.gene67987:CDS
CGTGGACGTGGTCGTGGTTA+TGG 0.362984 6.4:-11276402 MS.gene67987:CDS
AACCATTCATTACGAGCATT+AGG 0.386252 6.4:+11276780 None:intergenic
GAAAATGATGAAGATGATTA+TGG 0.391347 6.4:-11276105 MS.gene67987:CDS
TTTGGGACAATTTAAAAGAA+AGG 0.395342 6.4:-11276830 MS.gene67987:CDS
AGAAGATCCAAAAGATCTTT+GGG 0.400056 6.4:-11276847 MS.gene67987:CDS
GTGTTGCTACATTCACTTCT+GGG 0.423307 6.4:+11276475 None:intergenic
CGTGGTTATGGAAGGGGACG+TGG 0.429618 6.4:-11276390 MS.gene67987:CDS
CCTTCGTCACCACCTTCATA+AGG 0.433246 6.4:-11276895 MS.gene67987:CDS
TGCTATCGATGTGGAGGAAA+AGG 0.437478 6.4:-11276228 MS.gene67987:CDS
ATTAACACTGTGTGGAGAAA+AGG 0.440407 6.4:-11276688 MS.gene67987:CDS
CAAAATCGTGGTCGTGGCCG+TGG 0.442209 6.4:-11276438 MS.gene67987:CDS
CGTGGTCGTGGCCGTGGTCA+TGG 0.454221 6.4:-11276432 MS.gene67987:CDS
CAAAACAACTGAACAACAAA+AGG 0.454927 6.4:-11276934 MS.gene67987:CDS
AATTGTATCTCCATGCCCTT+CGG 0.460742 6.4:+11276968 None:intergenic
AGAAATCAGCAGCATCTAAG+TGG 0.464577 6.4:+11276067 None:intergenic
TTTCACGGTATTGTTGCTGC+AGG 0.465441 6.4:+11276607 None:intergenic
AATGTTGTAAAGAATGATAT+TGG 0.471241 6.4:-11276279 MS.gene67987:CDS
GCAGCAACAATACCGTGAAA+AGG 0.474876 6.4:-11276604 MS.gene67987:CDS
AATCACTCGGCTCGTCCCAC+TGG 0.475930 6.4:-11276510 MS.gene67987:CDS
GCTACATTCACTTCTGGGAA+TGG 0.483138 6.4:+11276480 None:intergenic
ACTTCAAAATAAGGATAAAA+GGG 0.487291 6.4:-11276148 MS.gene67987:CDS
CATTTAAATGCCGAAGGGCA+TGG 0.494088 6.4:-11276978 MS.gene67987:CDS
CAGCAACAATACCGTGAAAA+GGG 0.498612 6.4:-11276603 MS.gene67987:CDS
GACGTGGTCGTGGTTATGGA+AGG 0.501950 6.4:-11276398 MS.gene67987:CDS
GTAGCAACACATGATCACTA+TGG 0.504040 6.4:-11276462 MS.gene67987:CDS
GATGTGGAGGAAAAGGTCAT+TGG 0.504176 6.4:-11276221 MS.gene67987:CDS
CGTGGCCGTGGTCATGGTCG+TGG 0.506333 6.4:-11276426 MS.gene67987:CDS
TTCCTAATGCTCGTAATGAA+TGG 0.506622 6.4:-11276782 MS.gene67987:CDS
TACATTAGATGCATGAAAAG+TGG 0.516304 6.4:+11276632 None:intergenic
CGTGGACGTGGACGTGGTCG+TGG 0.530509 6.4:-11276408 MS.gene67987:CDS
CATTAGAGATGAAAATATCC+AGG 0.532865 6.4:-11276013 MS.gene67987:CDS
CATGGAGATACAATTAAAGA+AGG 0.533844 6.4:-11276960 MS.gene67987:CDS
AAAATTCATTTAAATGCCGA+AGG 0.537172 6.4:-11276984 MS.gene67987:CDS
CATGGTCGTGGACGTGGACG+TGG 0.538462 6.4:-11276414 MS.gene67987:CDS
CGTGGTCATGGTCGTGGACG+TGG 0.540833 6.4:-11276420 MS.gene67987:CDS
CGTGGTCGTGGTTATGGAAG+GGG 0.551769 6.4:-11276396 MS.gene67987:CDS
CTTAATATCATGCCTGCTTG+TGG 0.567363 6.4:-11276562 MS.gene67987:CDS
TATGGACAAAATCGTGGTCG+TGG 0.573891 6.4:-11276444 MS.gene67987:CDS
GTCTGTAATCGAATATAACT+CGG 0.574961 6.4:-11276733 MS.gene67987:CDS
AACTGAACAACAAAAGGCTA+AGG 0.582581 6.4:-11276928 MS.gene67987:CDS
ATTCATTACGAGCATTAGGA+AGG 0.589984 6.4:+11276784 None:intergenic
CCTTATGAAGGTGGTGACGA+AGG 0.598722 6.4:+11276895 None:intergenic
ACGTGGTCGTGGTTATGGAA+GGG 0.598966 6.4:-11276397 MS.gene67987:CDS
AGTATTTGCTATCGATGTGG+AGG 0.619536 6.4:-11276234 MS.gene67987:CDS
GAAATCAGCAGCATCTAAGT+GGG 0.621669 6.4:+11276068 None:intergenic
AAATTCATTTAAATGCCGAA+GGG 0.631745 6.4:-11276983 MS.gene67987:CDS
GAGAGTATTTGCTATCGATG+TGG 0.646271 6.4:-11276237 MS.gene67987:CDS
CACGTCCACGACCATGACCA+CGG 0.661673 6.4:+11276421 None:intergenic
GTGGTGACGAAGGAATATCA+TGG 0.663314 6.4:+11276905 None:intergenic
ACTTCTCTATTAACACTGTG+TGG 0.668278 6.4:-11276696 MS.gene67987:CDS
TGGGAATGGAGCACTACCAG+TGG 0.672955 6.4:+11276494 None:intergenic
GGGAATGGAGCACTACCAGT+GGG 0.676344 6.4:+11276495 None:intergenic
GATCACTATGGACAAAATCG+TGG 0.728183 6.4:-11276450 MS.gene67987:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATGTTGTAAAGAATGATAT+TGG - chr6.4:11276791-11276810 MS.gene67987:CDS 20.0%
!! ACTTCAAAATAAGGATAAAA+GGG - chr6.4:11276922-11276941 MS.gene67987:CDS 20.0%
!!! AATTTCTGGAAATAATTATC+TGG - chr6.4:11276046-11276065 MS.gene67987:CDS 20.0%
! AAAATTCATTTAAATGCCGA+AGG - chr6.4:11276086-11276105 MS.gene67987:CDS 25.0%
! AAATTCATTTAAATGCCGAA+GGG - chr6.4:11276087-11276106 MS.gene67987:CDS 25.0%
! CACTTCAAAATAAGGATAAA+AGG - chr6.4:11276921-11276940 MS.gene67987:CDS 25.0%
! GAAAATGATGAAGATGATTA+TGG - chr6.4:11276965-11276984 MS.gene67987:CDS 25.0%
! TGAAGATGATTATGGTAATA+TGG - chr6.4:11276973-11276992 MS.gene67987:CDS 25.0%
!! TAAAGATCAACAAGATGTTT+TGG + chr6.4:11276893-11276912 None:intergenic 25.0%
!! TATTTTCATCTCTAATGAGA+TGG + chr6.4:11277054-11277073 None:intergenic 25.0%
!! TTACAACATTTTTCATCTTC+TGG + chr6.4:11276781-11276800 None:intergenic 25.0%
!! TTCGGCATTTAAATGAATTT+TGG + chr6.4:11276087-11276106 None:intergenic 25.0%
!! TTTGGGACAATTTAAAAGAA+AGG - chr6.4:11276240-11276259 MS.gene67987:CDS 25.0%
!!! CATTTTTTAGATCCTTATGA+AGG + chr6.4:11276190-11276209 None:intergenic 25.0%
!!! GAGAAAATGTGTTTTTGTTT+TGG + chr6.4:11276757-11276776 None:intergenic 25.0%
AGAAGATCCAAAAGATCTTT+GGG - chr6.4:11276223-11276242 MS.gene67987:CDS 30.0%
CAAAACAACTGAACAACAAA+AGG - chr6.4:11276136-11276155 MS.gene67987:CDS 30.0%
CATGGAGATACAATTAAAGA+AGG - chr6.4:11276110-11276129 MS.gene67987:CDS 30.0%
CATTAGAGATGAAAATATCC+AGG - chr6.4:11277057-11277076 MS.gene67987:CDS 30.0%
CCAACAATCACTTCAAAATA+AGG - chr6.4:11276913-11276932 MS.gene67987:CDS 30.0%
GTCTGTAATCGAATATAACT+CGG - chr6.4:11276337-11276356 MS.gene67987:CDS 30.0%
TACATTAGATGCATGAAAAG+TGG + chr6.4:11276441-11276460 None:intergenic 30.0%
TAGAAGATCCAAAAGATCTT+TGG - chr6.4:11276222-11276241 MS.gene67987:CDS 30.0%
! AAATTGTCCCAAAGATCTTT+TGG + chr6.4:11276233-11276252 None:intergenic 30.0%
! AAGATCTTTTGGATCTTCTA+TGG + chr6.4:11276222-11276241 None:intergenic 30.0%
! GCTTTTGATGAAAAATCACT+CGG - chr6.4:11276547-11276566 MS.gene67987:CDS 30.0%
! TGGAAATAATTATCTGGCTT+GGG - chr6.4:11276052-11276071 MS.gene67987:CDS 30.0%
! TTTGAGGCTCTTAAAATTTC+TGG - chr6.4:11276032-11276051 MS.gene67987:CDS 30.0%
! TTTTTAGATCCTTATGAAGG+TGG + chr6.4:11276187-11276206 None:intergenic 30.0%
!! GGTTTTAATCGTAATCACAA+TGG - chr6.4:11276707-11276726 MS.gene67987:CDS 30.0%
!!! ACCTTTTAAAACCCTTTTCA+CGG + chr6.4:11276481-11276500 None:intergenic 30.0%
!!! CCTTATTTTGAAGTGATTGT+TGG + chr6.4:11276916-11276935 None:intergenic 30.0%
AACCATTCATTACGAGCATT+AGG + chr6.4:11276293-11276312 None:intergenic 35.0%
AACTGAACAACAAAAGGCTA+AGG - chr6.4:11276142-11276161 MS.gene67987:CDS 35.0%
ACTTCTCTATTAACACTGTG+TGG - chr6.4:11276374-11276393 MS.gene67987:CDS 35.0%
ATTAACACTGTGTGGAGAAA+AGG - chr6.4:11276382-11276401 MS.gene67987:CDS 35.0%
ATTCATTACGAGCATTAGGA+AGG + chr6.4:11276289-11276308 None:intergenic 35.0%
CTGGAAATAATTATCTGGCT+TGG - chr6.4:11276051-11276070 MS.gene67987:CDS 35.0%
TTCCTAATGCTCGTAATGAA+TGG - chr6.4:11276288-11276307 MS.gene67987:CDS 35.0%
! AGATGGTCAATCTTTTCATC+AGG + chr6.4:11277037-11277056 None:intergenic 35.0%
! CCTCAAAATCAAGTTTTGCA+AGG + chr6.4:11276019-11276038 None:intergenic 35.0%
! CCTTGCAAAACTTGATTTTG+AGG - chr6.4:11276016-11276035 MS.gene67987:CDS 35.0%
! CTTTTGGATCTTCTATGGTA+AGG + chr6.4:11276217-11276236 None:intergenic 35.0%
!!! ACCGTGAAAAGGGTTTTAAA+AGG - chr6.4:11276477-11276496 MS.gene67987:CDS 35.0%
AATTGTATCTCCATGCCCTT+CGG + chr6.4:11276105-11276124 None:intergenic 40.0%
AGAAATCAGCAGCATCTAAG+TGG + chr6.4:11277006-11277025 None:intergenic 40.0%
CAGCAACAATACCGTGAAAA+GGG - chr6.4:11276467-11276486 MS.gene67987:CDS 40.0%
CTTAATATCATGCCTGCTTG+TGG - chr6.4:11276508-11276527 MS.gene67987:CDS 40.0%
GAAATCAGCAGCATCTAAGT+GGG + chr6.4:11277005-11277024 None:intergenic 40.0%
GATCACTATGGACAAAATCG+TGG - chr6.4:11276620-11276639 MS.gene67987:CDS 40.0%
GTAGCAACACATGATCACTA+TGG - chr6.4:11276608-11276627 MS.gene67987:CDS 40.0%
! GAAGGATGACAGTTTTCTGA+TGG + chr6.4:11276271-11276290 None:intergenic 40.0%
! GTGTTGCTACATTCACTTCT+GGG + chr6.4:11276598-11276617 None:intergenic 40.0%
! TATTTTGTTCTGCCACAAGC+AGG + chr6.4:11276523-11276542 None:intergenic 40.0%
! TGTGTTGCTACATTCACTTC+TGG + chr6.4:11276599-11276618 None:intergenic 40.0%
!! AGTATTTGCTATCGATGTGG+AGG - chr6.4:11276836-11276855 MS.gene67987:CDS 40.0%
!! GAGAGTATTTGCTATCGATG+TGG - chr6.4:11276833-11276852 MS.gene67987:CDS 40.0%
CATTTAAATGCCGAAGGGCA+TGG - chr6.4:11276092-11276111 MS.gene67987:CDS 45.0%
GATGTGGAGGAAAAGGTCAT+TGG - chr6.4:11276849-11276868 MS.gene67987:CDS 45.0%
GCAGCAACAATACCGTGAAA+AGG - chr6.4:11276466-11276485 MS.gene67987:CDS 45.0%
TATGGACAAAATCGTGGTCG+TGG - chr6.4:11276626-11276645 MS.gene67987:CDS 45.0%
TGCTATCGATGTGGAGGAAA+AGG - chr6.4:11276842-11276861 MS.gene67987:CDS 45.0%
TTTCACGGTATTGTTGCTGC+AGG + chr6.4:11276466-11276485 None:intergenic 45.0%
! GCTACATTCACTTCTGGGAA+TGG + chr6.4:11276593-11276612 None:intergenic 45.0%
! GTGGTGACGAAGGAATATCA+TGG + chr6.4:11276168-11276187 None:intergenic 45.0%
!!! AAGATGTTTTGGCGTACGAC+AGG + chr6.4:11276882-11276901 None:intergenic 45.0%
ACGTGGTCGTGGTTATGGAA+GGG - chr6.4:11276673-11276692 MS.gene67987:CDS 50.0%
CCTTCGTCACCACCTTCATA+AGG - chr6.4:11276175-11276194 MS.gene67987:CDS 50.0%
! CCTTATGAAGGTGGTGACGA+AGG + chr6.4:11276178-11276197 None:intergenic 50.0%
! TATGGAAGGGGACGTGGTTT+TGG - chr6.4:11276686-11276705 MS.gene67987:CDS 50.0%
CGTGGTCGTGGTTATGGAAG+GGG - chr6.4:11276674-11276693 MS.gene67987:CDS 55.0%
GACGTGGTCGTGGTTATGGA+AGG - chr6.4:11276672-11276691 MS.gene67987:CDS 55.0%
! GGGAATGGAGCACTACCAGT+GGG + chr6.4:11276578-11276597 None:intergenic 55.0%
! TGGGAATGGAGCACTACCAG+TGG + chr6.4:11276579-11276598 None:intergenic 55.0%
CAAAATCGTGGTCGTGGCCG+TGG - chr6.4:11276632-11276651 MS.gene67987:CDS 60.0%
CACGTCCACGACCATGACCA+CGG + chr6.4:11276652-11276671 None:intergenic 60.0%
CGTGGACGTGGTCGTGGTTA+TGG - chr6.4:11276668-11276687 MS.gene67987:CDS 60.0%
CGTGGTTATGGAAGGGGACG+TGG - chr6.4:11276680-11276699 MS.gene67987:CDS 60.0%
! AATCACTCGGCTCGTCCCAC+TGG - chr6.4:11276560-11276579 MS.gene67987:CDS 60.0%
CATGGTCGTGGACGTGGACG+TGG - chr6.4:11276656-11276675 MS.gene67987:CDS 65.0%
CGTGGTCATGGTCGTGGACG+TGG - chr6.4:11276650-11276669 MS.gene67987:CDS 65.0%
CGTGGACGTGGACGTGGTCG+TGG - chr6.4:11276662-11276681 MS.gene67987:CDS 70.0%
CGTGGCCGTGGTCATGGTCG+TGG - chr6.4:11276644-11276663 MS.gene67987:CDS 70.0%
CGTGGTCGTGGCCGTGGTCA+TGG - chr6.4:11276638-11276657 MS.gene67987:CDS 70.0%


Chromosome Type Strat End Strand Name
chr6.4 gene 11276008 11277084 11276008 ID=MS.gene67987
chr6.4 mRNA 11276008 11277084 11276008 ID=MS.gene67987.t1;Parent=MS.gene67987
chr6.4 exon 11276008 11277084 11276008 ID=MS.gene67987.t1.exon1;Parent=MS.gene67987.t1
chr6.4 CDS 11276008 11277084 11276008 ID=cds.MS.gene67987.t1;Parent=MS.gene67987.t1
Gene Sequence

>MS.gene67987

ATGTCGAACCTTGCAAAACTTGATTTTGAGGCTCTTAAAATTTCTGGAAATAATTATCTGGCTTGGGCTCTAGATGCCAAAATTCATTTAAATGCCGAAGGGCATGGAGATACAATTAAAGAAGGAAACAAAACAACTGAACAACAAAAGGCTAAGGCCATGATATTCCTTCGTCACCACCTTCATAAGGATCTAAAAAATGAATACCTTACCATAGAAGATCCAAAAGATCTTTGGGACAATTTAAAAGAAAGGTTTGACCATCAGAAAACTGTCATCCTTCCTAATGCTCGTAATGAATGGTTATATTTGCGTTTACAGAACTTTAAGTCTGTAATCGAATATAACTCGGCTGTATTTAAGATTACTTCTCTATTAACACTGTGTGGAGAAAAGGTGACTGATGCGCAGATGTTAGAAAAAACATTCTCCACTTTTCATGCATCTAATGTAATCCTGCAGCAACAATACCGTGAAAAGGGTTTTAAAAGGTATTGTGACTTAATATCATGCCTGCTTGTGGCAGAACAAAATAACGAGCTTTTGATGAAAAATCACTCGGCTCGTCCCACTGGTAGTGCTCCATTCCCAGAAGTGAATGTAGCAACACATGATCACTATGGACAAAATCGTGGTCGTGGCCGTGGTCATGGTCGTGGACGTGGACGTGGTCGTGGTTATGGAAGGGGACGTGGTTTTGGTTTTAATCGTAATCACAATGGAGATTACAAGAACACATACTCTCACCAAAACAAAAACACATTTTCTCACCAGAAGATGAAAAATGTTGTAAAGAATGATATTGGTCAAAGCAGCAAAAGTAATGAGAGTATTTGCTATCGATGTGGAGGAAAAGGTCATTGGAGTCGTACCTGTCGTACGCCAAAACATCTTGTTGATCTTTACCAACAATCACTTCAAAATAAGGATAAAAGGGCTGAAACGCACTTTGCATGCGAAAATGATGAAGATGATTATGGTAATATGGAAAGTACCCACTTAGATGCTGCTGATTTCTTTGTTGATCCTGATGAAAAGATTGACCATCTCATTAGAGATGAAAATATCCAGGAATAG

Protein sequence

>MS.gene67987.t1

MSNLAKLDFEALKISGNNYLAWALDAKIHLNAEGHGDTIKEGNKTTEQQKAKAMIFLRHHLHKDLKNEYLTIEDPKDLWDNLKERFDHQKTVILPNARNEWLYLRLQNFKSVIEYNSAVFKITSLLTLCGEKVTDAQMLEKTFSTFHASNVILQQQYREKGFKRYCDLISCLLVAEQNNELLMKNHSARPTGSAPFPEVNVATHDHYGQNRGRGRGHGRGRGRGRGYGRGRGFGFNRNHNGDYKNTYSHQNKNTFSHQKMKNVVKNDIGQSSKSNESICYRCGGKGHWSRTCRTPKHLVDLYQQSLQNKDKRAETHFACENDEDDYGNMESTHLDAADFFVDPDEKIDHLIRDENIQE