AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene70400

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene70400.t1 MTR_4g094325 97.183 213 6 0 1 213 27 239 3.49e-152 422
MS.gene70400.t1 MTR_1g099010 62.802 207 73 2 7 213 15 217 3.60e-86 254
MS.gene70400.t1 MTR_4g094332 63.679 212 73 2 6 213 13 224 2.54e-83 247
MS.gene70400.t1 MTR_4g094328 62.212 217 77 2 2 213 8 224 2.81e-83 247
MS.gene70400.t1 MTR_4g094330 62.212 217 77 2 2 213 8 224 2.81e-83 247
MS.gene70400.t1 MTR_6g034975 61.215 214 75 3 4 213 1 210 2.00e-78 234
MS.gene70400.t1 MTR_0119s0010 60.406 197 68 2 14 210 23 209 3.99e-70 213
MS.gene70400.t1 MTR_0119s0020 60.406 197 68 2 14 210 23 209 3.99e-70 213
MS.gene70400.t1 MTR_2g008110 60.406 197 68 2 14 210 23 209 4.12e-70 213
MS.gene70400.t1 MTR_4g094335 55.714 210 86 2 10 212 20 229 3.01e-66 204
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene70400.t1 AT3G43660 58.852 209 73 3 6 213 2 198 2.95e-82 243
MS.gene70400.t1 AT1G21140 59.524 210 71 5 6 213 3 200 1.34e-74 224
MS.gene70400.t1 AT3G43630 61.053 190 69 1 23 212 12 196 3.56e-72 218
MS.gene70400.t1 AT1G76800 59.794 194 72 1 20 213 9 196 5.65e-70 212
MS.gene70400.t1 AT3G25190 59.070 215 79 3 8 213 3 217 2.09e-69 211

Find 43 sgRNAs with CRISPR-Local

Find 47 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CATTAACTTCATTGTTATTA+TGG 0.164844 4.3:-19969501 None:intergenic
CTCTTAGCCATTGTGCTCTT+TGG 0.168089 4.3:-19969582 None:intergenic
TCTTAGCCATTGTGCTCTTT+GGG 0.283198 4.3:-19969581 None:intergenic
ATGGCTATGGCTATTACTTT+TGG 0.286846 4.3:+19970069 MS.gene70400:CDS
GGTGCAACTGTTCCATTGTT+AGG 0.312326 4.3:+19969898 MS.gene70400:CDS
TCAATAACATCACTGATATT+AGG 0.320977 4.3:+19969637 MS.gene70400:CDS
ATGCTTCTAGCTGGATTTGC+AGG 0.330228 4.3:+19969691 MS.gene70400:CDS
TGAACTATAGCCAACTAATT+TGG 0.332042 4.3:-19970097 None:intergenic
TTTCTTCGGTTTCTTGAGTT+TGG 0.348710 4.3:-19969543 None:intergenic
TGGCTAAGAGCTGCTTTGTT+AGG 0.351691 4.3:+19969595 MS.gene70400:CDS
AATTGCAGGAGCATGTAGTA+TGG 0.371115 4.3:+19969717 MS.gene70400:CDS
CAACAAACAACCTTATCTTA+TGG 0.372163 4.3:-19969939 None:intergenic
ATAGCAGCTTGAAAAGGATT+TGG 0.379593 4.3:-19969850 None:intergenic
TATTGATACCAAACCATCAT+TGG 0.397645 4.3:-19969620 None:intergenic
GGATTTGCAGGACTAATTGC+AGG 0.405837 4.3:+19969703 MS.gene70400:CDS
GTTAGGAGCCAATGATGGTT+TGG 0.408839 4.3:+19969612 MS.gene70400:CDS
GGAGCATGTAGTATGGGAAT+TGG 0.413287 4.3:+19969724 MS.gene70400:CDS
ATAAGGTTGTTTGTTGTTGT+TGG 0.419241 4.3:+19969946 MS.gene70400:CDS
GTTGTTTGTTGTTGTTGGTA+TGG 0.425598 4.3:+19969951 MS.gene70400:CDS
TTGTTGGTGTTTGGTGGAGT+TGG 0.434863 4.3:+19969985 MS.gene70400:CDS
GTACACTCAATTTGACATAA+TGG 0.442870 4.3:+19969762 MS.gene70400:CDS
AGTGGTGGTTGGAGGTTGGA+TGG 0.447165 4.3:+19970050 MS.gene70400:CDS
TTAGAGTGGTGGTTGGAGGT+TGG 0.453273 4.3:+19970046 MS.gene70400:CDS
TTGTACTTTATGGTTTCTCT+TGG 0.457022 4.3:+19969475 None:intergenic
TTTGGCTTGACCAAATTAGT+TGG 0.462254 4.3:+19970087 MS.gene70400:CDS
GGTGGAGTTGGAGCAATACT+TGG 0.463894 4.3:+19969997 MS.gene70400:CDS
TGTGTTAGAGTGGTGGTTGG+AGG 0.467615 4.3:+19970042 MS.gene70400:CDS
TGTTAGGAGCAGCATTGGTA+AGG 0.467798 4.3:+19969914 MS.gene70400:CDS
TTTGCATTGTTGGTGTTTGG+TGG 0.472445 4.3:+19969979 MS.gene70400:CDS
GGTTGGAGGTTGGATGGCTA+TGG 0.474740 4.3:+19970056 MS.gene70400:CDS
TCCATTGTTAGGAGCAGCAT+TGG 0.480068 4.3:+19969909 MS.gene70400:CDS
ATCAAAACAATGCTTCTAGC+TGG 0.493445 4.3:+19969682 MS.gene70400:CDS
TCTTGTGTTAGAGTGGTGGT+TGG 0.541101 4.3:+19970039 MS.gene70400:CDS
GATGCAATAGCAGCTTGAAA+AGG 0.549841 4.3:-19969856 None:intergenic
ACCAATGCTGCTCCTAACAA+TGG 0.557852 4.3:-19969910 None:intergenic
GCTTTGTTAGGAGCCAATGA+TGG 0.562216 4.3:+19969607 MS.gene70400:CDS
GTTAGGAGCAGCATTGGTAA+GGG 0.568514 4.3:+19969915 MS.gene70400:CDS
ATTGCAGGAGCATGTAGTAT+GGG 0.575864 4.3:+19969718 MS.gene70400:CDS
ACATCACTGATATTAGGTGT+TGG 0.581679 4.3:+19969643 MS.gene70400:CDS
TGGTAAGGGACCATAAGATA+AGG 0.588888 4.3:+19969929 MS.gene70400:CDS
AATGTCTTGTGTTAGAGTGG+TGG 0.635471 4.3:+19970035 MS.gene70400:CDS
GAAAATGTCTTGTGTTAGAG+TGG 0.645932 4.3:+19970032 MS.gene70400:CDS
ACTATTCCCAAAGAGCACAA+TGG 0.686489 4.3:+19969575 MS.gene70400:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! CATTAACTTCATTGTTATTA+TGG - chr4.3:19969504-19969523 None:intergenic 20.0%
! TCAATAACATCACTGATATT+AGG + chr4.3:19969637-19969656 MS.gene70400:CDS 25.0%
!!! ATAGTCAATGTTGTTTTCTT+CGG - chr4.3:19969560-19969579 None:intergenic 25.0%
CAACAAACAACCTTATCTTA+TGG - chr4.3:19969942-19969961 None:intergenic 30.0%
GTACACTCAATTTGACATAA+TGG + chr4.3:19969762-19969781 MS.gene70400:CDS 30.0%
TATTGATACCAAACCATCAT+TGG - chr4.3:19969623-19969642 None:intergenic 30.0%
TGAACTATAGCCAACTAATT+TGG - chr4.3:19970100-19970119 None:intergenic 30.0%
! TCAGCAATTGCATTTTCATT+TGG + chr4.3:19969877-19969896 MS.gene70400:CDS 30.0%
!! ATAAGGTTGTTTGTTGTTGT+TGG + chr4.3:19969946-19969965 MS.gene70400:CDS 30.0%
ACATCACTGATATTAGGTGT+TGG + chr4.3:19969643-19969662 MS.gene70400:CDS 35.0%
ATAGCAGCTTGAAAAGGATT+TGG - chr4.3:19969853-19969872 None:intergenic 35.0%
ATCAAAACAATGCTTCTAGC+TGG + chr4.3:19969682-19969701 MS.gene70400:CDS 35.0%
GAAAATGTCTTGTGTTAGAG+TGG + chr4.3:19970032-19970051 MS.gene70400:CDS 35.0%
TTTCTTCGGTTTCTTGAGTT+TGG - chr4.3:19969546-19969565 None:intergenic 35.0%
! ATGGCTATGGCTATTACTTT+TGG + chr4.3:19970069-19970088 MS.gene70400:CDS 35.0%
!! AGTTTTGCATTGTTGGTGTT+TGG + chr4.3:19969976-19969995 MS.gene70400:CDS 35.0%
!! GTTGTTTGTTGTTGTTGGTA+TGG + chr4.3:19969951-19969970 MS.gene70400:CDS 35.0%
!! TTTGGCTTGACCAAATTAGT+TGG + chr4.3:19970087-19970106 MS.gene70400:CDS 35.0%
!!! TATGGCTAGTTTTGCATTGT+TGG + chr4.3:19969969-19969988 MS.gene70400:CDS 35.0%
AATGTCTTGTGTTAGAGTGG+TGG + chr4.3:19970035-19970054 MS.gene70400:CDS 40.0%
GATGCAATAGCAGCTTGAAA+AGG - chr4.3:19969859-19969878 None:intergenic 40.0%
TCTTAGCCATTGTGCTCTTT+GGG - chr4.3:19969584-19969603 None:intergenic 40.0%
TGGTAAGGGACCATAAGATA+AGG + chr4.3:19969929-19969948 MS.gene70400:CDS 40.0%
! AATTGCAGGAGCATGTAGTA+TGG + chr4.3:19969717-19969736 MS.gene70400:CDS 40.0%
! ACTATTCCCAAAGAGCACAA+TGG + chr4.3:19969575-19969594 MS.gene70400:CDS 40.0%
! ATTGCAGGAGCATGTAGTAT+GGG + chr4.3:19969718-19969737 MS.gene70400:CDS 40.0%
! CAACAGCACTTTTGTTGAAG+AGG + chr4.3:19969813-19969832 MS.gene70400:CDS 40.0%
! TTTGCATTGTTGGTGTTTGG+TGG + chr4.3:19969979-19969998 MS.gene70400:CDS 40.0%
ACCAATGCTGCTCCTAACAA+TGG - chr4.3:19969913-19969932 None:intergenic 45.0%
CTCTTAGCCATTGTGCTCTT+TGG - chr4.3:19969585-19969604 None:intergenic 45.0%
GGAGCATGTAGTATGGGAAT+TGG + chr4.3:19969724-19969743 MS.gene70400:CDS 45.0%
GGATTTGCAGGACTAATTGC+AGG + chr4.3:19969703-19969722 MS.gene70400:CDS 45.0%
GGTGCAACTGTTCCATTGTT+AGG + chr4.3:19969898-19969917 MS.gene70400:CDS 45.0%
GTTAGGAGCCAATGATGGTT+TGG + chr4.3:19969612-19969631 MS.gene70400:CDS 45.0%
TCCATTGTTAGGAGCAGCAT+TGG + chr4.3:19969909-19969928 MS.gene70400:CDS 45.0%
TCTTGTGTTAGAGTGGTGGT+TGG + chr4.3:19970039-19970058 MS.gene70400:CDS 45.0%
! ATGCTTCTAGCTGGATTTGC+AGG + chr4.3:19969691-19969710 MS.gene70400:CDS 45.0%
! GCTTTGTTAGGAGCCAATGA+TGG + chr4.3:19969607-19969626 MS.gene70400:CDS 45.0%
! TGGCTAAGAGCTGCTTTGTT+AGG + chr4.3:19969595-19969614 MS.gene70400:CDS 45.0%
! TTGTTGGTGTTTGGTGGAGT+TGG + chr4.3:19969985-19970004 MS.gene70400:CDS 45.0%
!! GTTAGGAGCAGCATTGGTAA+GGG + chr4.3:19969915-19969934 MS.gene70400:CDS 45.0%
!! TGTTAGGAGCAGCATTGGTA+AGG + chr4.3:19969914-19969933 MS.gene70400:CDS 45.0%
GGTGGAGTTGGAGCAATACT+TGG + chr4.3:19969997-19970016 MS.gene70400:CDS 50.0%
TGTGTTAGAGTGGTGGTTGG+AGG + chr4.3:19970042-19970061 MS.gene70400:CDS 50.0%
TTAGAGTGGTGGTTGGAGGT+TGG + chr4.3:19970046-19970065 MS.gene70400:CDS 50.0%
AGTGGTGGTTGGAGGTTGGA+TGG + chr4.3:19970050-19970069 MS.gene70400:CDS 55.0%
GGTTGGAGGTTGGATGGCTA+TGG + chr4.3:19970056-19970075 MS.gene70400:CDS 55.0%


Chromosome Type Strat End Strand Name
chr4.3 gene 19969484 19970125 19969484 ID=MS.gene70400
chr4.3 mRNA 19969484 19970125 19969484 ID=MS.gene70400.t1;Parent=MS.gene70400
chr4.3 exon 19969484 19970125 19969484 ID=MS.gene70400.t1.exon1;Parent=MS.gene70400.t1
chr4.3 CDS 19969484 19970125 19969484 ID=cds.MS.gene70400.t1;Parent=MS.gene70400.t1
Gene Sequence

>MS.gene70400

ATGGTTTCTCTTGGTAACCATAATAACAATGAAGTTAATGACATAGAAGCAAAGCAAAACCAAACTCAAGAAACCGAAGAAAACAACATTGACTATTCCCAAAGAGCACAATGGCTAAGAGCTGCTTTGTTAGGAGCCAATGATGGTTTGGTATCAATAACATCACTGATATTAGGTGTTGGAGCTGTGCATGAAGACATCAAAACAATGCTTCTAGCTGGATTTGCAGGACTAATTGCAGGAGCATGTAGTATGGGAATTGGAGAGTTTGTATCAGTGTACACTCAATTTGACATAATGGTAGCTCAAATGAAAAGAGAGAACAAAATCAACAGCACTTTTGTTGAAGAGGAAAAGAAGCTACTACCAAATCCTTTTCAAGCTGCTATTGCATCAGCAATTGCATTTTCATTTGGTGCAACTGTTCCATTGTTAGGAGCAGCATTGGTAAGGGACCATAAGATAAGGTTGTTTGTTGTTGTTGGTATGGCTAGTTTTGCATTGTTGGTGTTTGGTGGAGTTGGAGCAATACTTGGTAAAACATCAGTGAAAATGTCTTGTGTTAGAGTGGTGGTTGGAGGTTGGATGGCTATGGCTATTACTTTTGGCTTGACCAAATTAGTTGGCTATAGTTCACTTTGA
Protein sequence

>MS.gene70400.t1

MVSLGNHNNNEVNDIEAKQNQTQETEENNIDYSQRAQWLRAALLGANDGLVSITSLILGVGAVHEDIKTMLLAGFAGLIAGACSMGIGEFVSVYTQFDIMVAQMKRENKINSTFVEEEKKLLPNPFQAAIASAIAFSFGATVPLLGAALVRDHKIRLFVVVGMASFALLVFGGVGAILGKTSVKMSCVRVVVGGWMAMAITFGLTKLVGYSSL