AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene48829


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene48829.t1 MTR_4g027840 88.696 115 13 0 1 115 1 115 9.92e-69 202
MS.gene48829.t1 MTR_4g027800 87.931 116 14 0 1 116 1 116 1.06e-68 202
MS.gene48829.t1 MTR_4g428370 82.759 116 20 0 1 116 58 173 4.48e-65 194
MS.gene48829.t1 MTR_4g029390 64.957 117 38 2 1 115 1 116 1.76e-46 145
MS.gene48829.t1 MTR_4g029350 65.812 117 37 2 1 115 1 116 2.41e-46 145
MS.gene48829.t1 MTR_4g029210 50.000 112 56 0 1 112 1 112 2.52e-32 110
MS.gene48829.t1 MTR_7g072930 49.107 112 54 2 4 113 7 117 6.27e-32 110
MS.gene48829.t1 MTR_4g028190 47.368 114 58 2 1 112 5 118 5.48e-31 107
MS.gene48829.t1 MTR_7g073150 47.619 105 51 3 12 113 14 117 3.70e-28 100
MS.gene48829.t1 MTR_7g073170 44.248 113 59 3 4 114 7 117 2.42e-27 97.4
MS.gene48829.t1 MTR_7g072830 39.474 114 67 1 4 115 7 120 7.64e-27 96.3
MS.gene48829.t1 MTR_7g072730 39.286 112 66 2 4 113 7 118 7.61e-26 95.1
MS.gene48829.t1 MTR_4g028180 40.678 118 63 3 5 115 9 126 3.78e-25 92.0
MS.gene48829.t1 MTR_4g028310 39.496 119 69 1 1 116 1 119 1.23e-24 91.3
MS.gene48829.t1 MTR_2g062600 41.739 115 65 2 1 114 1 114 8.93e-24 88.6
MS.gene48829.t1 MTR_7g073120 38.938 113 67 1 1 111 5 117 9.87e-23 86.7
MS.gene48829.t1 MTR_7g072900 44.643 112 57 4 4 112 7 116 1.27e-21 82.8
MS.gene48829.t1 MTR_7g072993 43.750 112 58 3 4 111 7 117 1.45e-21 83.6
MS.gene48829.t1 MTR_7g072960 40.541 111 51 2 4 113 7 103 1.03e-20 81.3
MS.gene48829.t1 MTR_4g028250 38.983 118 69 2 1 115 1 118 2.67e-20 79.7
MS.gene48829.t1 MTR_3g467100 36.607 112 70 1 5 115 3 114 6.69e-20 78.6
MS.gene48829.t1 MTR_7g072980 38.393 112 65 3 4 112 7 117 1.18e-18 75.9
MS.gene48829.t1 MTR_7g451500 38.043 92 56 1 24 114 7 98 2.72e-18 73.9
MS.gene48829.t1 MTR_7g073130 38.739 111 64 4 4 112 7 115 1.05e-17 73.2
MS.gene48829.t1 MTR_1g040335 41.964 112 62 2 5 114 8 118 1.23e-17 72.8
MS.gene48829.t1 MTR_7g073100 38.053 113 63 2 4 112 7 116 3.76e-17 72.4
MS.gene48829.t1 MTR_7g073060 37.719 114 68 3 4 115 7 119 9.28e-17 70.5
MS.gene48829.t1 MTR_7g072810 40.000 110 58 3 4 111 7 110 9.91e-16 68.2
MS.gene48829.t1 MTR_4g028360 34.513 113 71 3 4 114 1 112 1.09e-15 68.2
MS.gene48829.t1 MTR_7g073030 35.455 110 68 3 4 111 7 115 2.81e-14 65.1
MS.gene48829.t1 MTR_3g056640 34.746 118 69 4 4 115 7 122 3.03e-14 64.3
MS.gene48829.t1 MTR_3g046530 32.203 118 72 4 4 115 7 122 3.23e-13 61.6
MS.gene48829.t1 MTR_3g046515 33.913 115 66 5 4 110 7 119 5.01e-13 60.8
MS.gene48829.t1 MTR_3g046540 33.913 115 66 5 4 110 7 119 2.45e-12 59.3
MS.gene48829.t1 MTR_3g464130 37.778 90 51 3 25 110 18 106 4.14e-12 58.2
MS.gene48829.t1 MTR_7g072987 48.529 68 32 2 25 90 57 123 7.43e-12 58.9
MS.gene48829.t1 MTR_1g040330 38.596 114 65 4 5 115 8 119 1.13e-11 57.4
MS.gene48829.t1 MTR_7g072760 30.172 116 77 2 4 115 7 122 2.20e-11 57.0
MS.gene48829.t1 MTR_3g464110 38.554 83 48 2 33 113 92 173 4.28e-11 57.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene48829.t1 AT2G38540 62.931 116 37 6 4 115 5 118 5.10e-38 124
MS.gene48829.t1 AT5G59310 60.000 110 39 2 6 115 8 112 1.18e-37 123
MS.gene48829.t1 AT5G59320 57.273 110 45 1 6 115 8 115 1.20e-36 121
MS.gene48829.t1 AT2G38530 57.391 115 45 4 4 115 5 118 1.25e-31 108
MS.gene48829.t1 AT3G51600 51.304 115 52 4 4 115 5 118 7.85e-29 101
MS.gene48829.t1 AT3G51590 46.364 110 56 3 6 114 8 115 8.80e-28 98.6
MS.gene48829.t1 AT2G15050 44.068 118 60 4 4 115 5 122 1.99e-27 97.8
MS.gene48829.t1 AT2G15050 43.966 116 59 4 4 113 5 120 5.85e-26 94.4
MS.gene48829.t1 AT4G33355 49.462 93 47 0 23 115 27 119 1.90e-25 92.8
MS.gene48829.t1 AT2G15050 44.037 109 57 3 4 108 5 113 3.30e-25 92.0
MS.gene48829.t1 AT4G33355 50.562 89 44 0 23 111 27 115 8.25e-25 91.3
MS.gene48829.t1 AT5G01870 43.860 114 56 4 9 115 4 116 1.31e-24 90.5
MS.gene48829.t1 AT3G08770 45.361 97 49 3 22 115 18 113 5.68e-20 78.6
MS.gene48829.t1 AT3G08770 46.237 93 46 3 22 111 18 109 6.28e-19 76.3
MS.gene48829.t1 AT2G18370 36.364 110 68 2 6 114 7 115 5.96e-18 73.6
MS.gene48829.t1 AT2G15325 34.066 91 57 2 27 115 31 120 1.38e-12 60.1

Find 32 sgRNAs with CRISPR-Local

Find 45 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGTGCTGCTGGTGCTATTTC+TGG 0.136175 4.4:+74128111 MS.gene48829:CDS
CCATGCATTGGATATCTTAG+AGG 0.354250 4.4:+74127988 MS.gene48829:CDS
GCTATTTCTGGTTTGAATAC+AGG 0.359485 4.4:+74128123 MS.gene48829:CDS
CCATCTCCAGCATGCTGTGC+TGG 0.375274 4.4:+74128021 MS.gene48829:CDS
TTGCAAGCAGCCTGACGGTC+AGG 0.429945 4.4:-74128078 None:intergenic
CACCACCACACCTGACCGTC+AGG 0.431390 4.4:+74128068 MS.gene48829:CDS
GTCAGGTGTGGTGGTGGCGG+CGG 0.461362 4.4:-74128061 None:intergenic
GTGCATGATTGTTGCACCTA+TGG 0.467928 4.4:+74127921 MS.gene48829:CDS
ACGGTCAGGTGTGGTGGTGG+CGG 0.483285 4.4:-74128064 None:intergenic
TTCACTCCAGCACAGCATGC+TGG 0.485039 4.4:-74128027 None:intergenic
AACTGTTTGAAAAGTGCTGC+TGG 0.487070 4.4:+74128099 MS.gene48829:CDS
TCTTCTCTCCCTGGCAAATG+TGG 0.490642 4.4:+74128153 MS.gene48829:CDS
GGATATCTTAGAGGTGGTGC+TGG 0.504129 4.4:+74127997 MS.gene48829:CDS
GTGGAGGTACTGATCTTGTA+AGG 0.508470 4.4:-74128186 None:intergenic
ATGTTAACACCACATTTGCC+AGG 0.518576 4.4:-74128162 None:intergenic
CTGACGGTCAGGTGTGGTGG+TGG 0.525863 4.4:-74128067 None:intergenic
GGCGCAGCTTCTTCTCTCCC+TGG 0.542091 4.4:+74128144 MS.gene48829:CDS
AGTGCTCTTTCTCCATGCAT+TGG 0.549634 4.4:+74127976 MS.gene48829:CDS
CCAGCACAGCATGCTGGAGA+TGG 0.550113 4.4:-74128021 None:intergenic
AACATACGTAGCACAGTTGG+TGG 0.554041 4.4:-74128205 None:intergenic
GAAAACAATGGCAAGCATCA+AGG 0.555387 4.4:+74127876 None:intergenic
AGCCTGACGGTCAGGTGTGG+TGG 0.572781 4.4:-74128070 None:intergenic
TTGTTATACTTACAGCATCA+GGG 0.577540 4.4:+74128586 MS.gene48829:intron
GAGATTGCAGCATCTGCCAT+AGG 0.577723 4.4:-74127937 None:intergenic
CCTCTAAGATATCCAATGCA+TGG 0.598915 4.4:-74127988 None:intergenic
AGCAGCCTGACGGTCAGGTG+TGG 0.606881 4.4:-74128073 None:intergenic
AACAGTTGCAAGCAGCCTGA+CGG 0.612786 4.4:-74128083 None:intergenic
ATAAACATACGTAGCACAGT+TGG 0.615719 4.4:-74128208 None:intergenic
TGCATTGGATATCTTAGAGG+TGG 0.623803 4.4:+74127991 MS.gene48829:CDS
ATACGTAGCACAGTTGGTGG+AGG 0.639269 4.4:-74128202 None:intergenic
TGTTAACACCACATTTGCCA+GGG 0.642773 4.4:-74128161 None:intergenic
GCAGATGCTGCAATCTCATG+TGG 0.654132 4.4:+74127943 MS.gene48829:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AAAATTTTATTAAAAAAATA+TGG - chr4.4:74128458-74128477 None:intergenic 0.0%
!!! TAAATCATTCTTTTAATTTT+AGG + chr4.4:74128348-74128367 MS.gene48829:intron 10.0%
!!! TTATATTATTCAATGTTTTT+GGG + chr4.4:74128477-74128496 MS.gene48829:intron 10.0%
!!! TTTATATTATTCAATGTTTT+TGG + chr4.4:74128476-74128495 MS.gene48829:intron 10.0%
!!! AAAATTTAGTTGTTTAACTT+TGG - chr4.4:74128305-74128324 None:intergenic 15.0%
!!! TATAAATTCTTTTTTGCTTA+AGG + chr4.4:74128421-74128440 MS.gene48829:intron 15.0%
!! TAGAAAATTAATCACTGACT+AGG + chr4.4:74128553-74128572 MS.gene48829:intron 25.0%
!!! CTACGAATCTACTTTTTTAT+TGG + chr4.4:74128521-74128540 MS.gene48829:intron 25.0%
!!! TTTTATCCTCATTTTTCAAG+TGG + chr4.4:74128251-74128270 MS.gene48829:intron 25.0%
TTGTTATACTTACAGCATCA+GGG + chr4.4:74128586-74128605 MS.gene48829:intron 30.0%
! TTACCATTTGAGATTGTTGA+GGG + chr4.4:74128325-74128344 MS.gene48829:intron 30.0%
! TTTACCATTTGAGATTGTTG+AGG + chr4.4:74128324-74128343 MS.gene48829:intron 30.0%
! TTTGTTATACTTACAGCATC+AGG + chr4.4:74128585-74128604 MS.gene48829:intron 30.0%
ACTAGACCACTTGAAAAATG+AGG - chr4.4:74128260-74128279 None:intergenic 35.0%
ATAAACATACGTAGCACAGT+TGG - chr4.4:74128211-74128230 None:intergenic 35.0%
TTACCCTCAACAATCTCAAA+TGG - chr4.4:74128331-74128350 None:intergenic 35.0%
!! GCTATTTCTGGTTTGAATAC+AGG + chr4.4:74128123-74128142 MS.gene48829:CDS 35.0%
ATGTTAACACCACATTTGCC+AGG - chr4.4:74128165-74128184 None:intergenic 40.0%
CCATGCATTGGATATCTTAG+AGG + chr4.4:74127988-74128007 MS.gene48829:CDS 40.0%
TGCATTGGATATCTTAGAGG+TGG + chr4.4:74127991-74128010 MS.gene48829:CDS 40.0%
TGTTAACACCACATTTGCCA+GGG - chr4.4:74128164-74128183 None:intergenic 40.0%
!! AACTGTTTGAAAAGTGCTGC+TGG + chr4.4:74128099-74128118 MS.gene48829:CDS 40.0%
!! CCTCTAAGATATCCAATGCA+TGG - chr4.4:74127991-74128010 None:intergenic 40.0%
AACATACGTAGCACAGTTGG+TGG - chr4.4:74128208-74128227 None:intergenic 45.0%
AGTGCTCTTTCTCCATGCAT+TGG + chr4.4:74127976-74127995 MS.gene48829:CDS 45.0%
GTGCATGATTGTTGCACCTA+TGG + chr4.4:74127921-74127940 MS.gene48829:CDS 45.0%
!! GTGGAGGTACTGATCTTGTA+AGG - chr4.4:74128189-74128208 None:intergenic 45.0%
AACAGTTGCAAGCAGCCTGA+CGG - chr4.4:74128086-74128105 None:intergenic 50.0%
GAGATTGCAGCATCTGCCAT+AGG - chr4.4:74127940-74127959 None:intergenic 50.0%
GCAGATGCTGCAATCTCATG+TGG + chr4.4:74127943-74127962 MS.gene48829:CDS 50.0%
GGATATCTTAGAGGTGGTGC+TGG + chr4.4:74127997-74128016 MS.gene48829:CDS 50.0%
TCTTCTCTCCCTGGCAAATG+TGG + chr4.4:74128153-74128172 MS.gene48829:CDS 50.0%
!! AGTGCTGCTGGTGCTATTTC+TGG + chr4.4:74128111-74128130 MS.gene48829:CDS 50.0%
!! ATACGTAGCACAGTTGGTGG+AGG - chr4.4:74128205-74128224 None:intergenic 50.0%
TTCACTCCAGCACAGCATGC+TGG - chr4.4:74128030-74128049 None:intergenic 55.0%
CCAGCACAGCATGCTGGAGA+TGG - chr4.4:74128024-74128043 None:intergenic 60.0%
CCATCTCCAGCATGCTGTGC+TGG + chr4.4:74128021-74128040 MS.gene48829:CDS 60.0%
TTGCAAGCAGCCTGACGGTC+AGG - chr4.4:74128081-74128100 None:intergenic 60.0%
AGCAGCCTGACGGTCAGGTG+TGG - chr4.4:74128076-74128095 None:intergenic 65.0%
AGCCTGACGGTCAGGTGTGG+TGG - chr4.4:74128073-74128092 None:intergenic 65.0%
CACCACCACACCTGACCGTC+AGG + chr4.4:74128068-74128087 MS.gene48829:CDS 65.0%
CTGACGGTCAGGTGTGGTGG+TGG - chr4.4:74128070-74128089 None:intergenic 65.0%
GGCGCAGCTTCTTCTCTCCC+TGG + chr4.4:74128144-74128163 MS.gene48829:CDS 65.0%
!! ACGGTCAGGTGTGGTGGTGG+CGG - chr4.4:74128067-74128086 None:intergenic 65.0%
!! GTCAGGTGTGGTGGTGGCGG+CGG - chr4.4:74128064-74128083 None:intergenic 70.0%


Chromosome Type Strat End Strand Name
chr4.4 gene 74127883 74128613 74127883 ID=MS.gene48829
chr4.4 mRNA 74127883 74128613 74127883 ID=MS.gene48829.t1;Parent=MS.gene48829
chr4.4 exon 74127883 74128220 74127883 ID=MS.gene48829.t1.exon1;Parent=MS.gene48829.t1
chr4.4 CDS 74127883 74128220 74127883 ID=cds.MS.gene48829.t1;Parent=MS.gene48829.t1
chr4.4 exon 74128601 74128613 74128601 ID=MS.gene48829.t1.exon2;Parent=MS.gene48829.t1
chr4.4 CDS 74128601 74128613 74128601 ID=cds.MS.gene48829.t1;Parent=MS.gene48829.t1
Gene Sequence

>MS.gene48829

ATGGCAAGCATCAAGGTAGCATGTGTTGTTTTGATGATGTGCATGATTGTTGCACCTATGGCAGATGCTGCAATCTCATGTGGACAAGTGAGCAGTGCTCTTTCTCCATGCATTGGATATCTTAGAGGTGGTGCTGGTCCATCTCCAGCATGCTGTGCTGGAGTGAAGAGACTTAACGCCGCCGCCACCACCACACCTGACCGTCAGGCTGCTTGCAACTGTTTGAAAAGTGCTGCTGGTGCTATTTCTGGTTTGAATACAGGCGCAGCTTCTTCTCTCCCTGGCAAATGTGGTGTTAACATTCCTTACAAGATCAGTACCTCCACCAACTGTGCTACGTATGTTTATCTAACTTCAAACTTTCACTTTTTTATCCTCATTTTTCAAGTGGTCTAGTATTCATAACATAACAGAAGTAACCAAAGTTAAACAACTAAATTTTTTACCATTTGAGATTGTTGAGGGTAAATCATTCTTTTAATTTTAGGATCACTTTATAGATATGCTATTTTATTTTCTATAGTACGTAGTAAAATTTTATAAATTCTTTTTTGCTTAAGGATGTTTTAATACCATATTTTTTTAATAAAATTTTTATATTATTCAATGTTTTTGGGAATTTTTTTGAGATTAAGTCACTACGAATCTACTTTTTTATTGGTCTATAAAATAGAAAATTAATCACTGACTAGGTTTTTTTGTTTTGTTATACTTACAGCATCAGGGCATGA

Protein sequence

>MS.gene48829.t1

MASIKVACVVLMMCMIVAPMADAAISCGQVSSALSPCIGYLRGGAGPSPACCAGVKRLNAAATTTPDRQAACNCLKSAAGAISGLNTGAASSLPGKCGVNIPYKISTSTNCATIRA