AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0380014993.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380014993.01.T01 MTR_3g467270 96.825 126 4 0 60 185 244 369 6.67e-84 252
MsG0380014993.01.T01 MTR_4g018820 72.000 125 24 1 60 184 245 358 5.17e-58 186
MsG0380014993.01.T01 MTR_8g077040 69.048 126 39 0 60 185 245 370 6.62e-58 186
MsG0380014993.01.T01 MTR_8g076900 70.400 125 29 2 60 184 245 361 2.82e-55 179
MsG0380014993.01.T01 MTR_5g020940 66.400 125 42 0 60 184 256 380 3.30e-54 176
MsG0380014993.01.T01 MTR_6g056070 57.692 130 41 2 56 185 242 357 5.02e-42 144
MsG0380014993.01.T01 MTR_8g020690 54.400 125 46 1 60 184 246 359 2.87e-40 140
MsG0380014993.01.T01 MTR_8g020700 51.200 125 47 2 60 184 246 356 4.16e-34 124
MsG0380014993.01.T01 MTR_8g077030 43.478 161 56 7 37 173 120 269 1.03e-23 97.4
MsG0380014993.01.T01 MTR_1g022465 38.400 125 69 1 60 184 261 377 1.10e-23 96.3
MsG0380014993.01.T01 MTR_1g022455 36.800 125 72 1 60 184 261 378 1.13e-22 93.6
MsG0380014993.01.T01 MTR_6g015620 33.071 127 80 3 59 184 15 137 2.31e-18 77.4
MsG0380014993.01.T01 MTR_3g467560 33.594 128 78 2 56 183 267 387 6.25e-18 80.5
MsG0380014993.01.T01 MTR_7g084620 31.061 132 83 2 56 185 240 365 6.45e-18 80.5
MsG0380014993.01.T01 MTR_7g084330 31.538 130 85 1 56 185 208 333 2.29e-17 78.6
MsG0380014993.01.T01 MTR_3g117060 33.065 124 78 3 62 184 249 368 8.58e-17 77.4
MsG0380014993.01.T01 MTR_7g084350 29.545 132 85 2 56 185 240 365 5.21e-15 72.0
MsG0380014993.01.T01 MTR_7g084340 27.692 130 84 2 57 183 7 129 6.58e-15 68.2
MsG0380014993.01.T01 MTR_5g046110 28.070 114 66 2 58 170 309 407 1.23e-11 62.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380014993.01.T01 AT3G11480 31.053 190 111 3 4 184 201 379 2.42e-19 84.3
MsG0380014993.01.T01 AT1G19640 36.800 125 78 1 60 183 263 387 3.54e-19 84.0
MsG0380014993.01.T01 AT5G04370 33.158 190 109 7 4 184 210 390 4.21e-17 78.2
MsG0380014993.01.T01 AT5G04370 33.158 190 109 7 4 184 215 395 4.92e-17 78.2
MsG0380014993.01.T01 AT5G04370 33.158 190 109 7 4 184 229 409 5.64e-17 78.2
MsG0380014993.01.T01 AT4G36470 34.194 155 85 5 36 184 227 370 4.61e-16 75.1
MsG0380014993.01.T01 AT5G04380 29.630 189 116 5 6 184 137 318 4.11e-15 72.4
MsG0380014993.01.T01 AT5G04380 29.630 189 116 5 6 184 208 389 6.43e-15 72.0
MsG0380014993.01.T01 AT5G66430 32.000 125 81 1 60 184 234 354 3.94e-14 69.7
MsG0380014993.01.T01 AT2G14060 32.331 133 76 4 59 184 247 372 4.09e-14 69.7
MsG0380014993.01.T01 AT5G38020 32.867 143 74 6 55 184 196 329 4.83e-14 69.3
MsG0380014993.01.T01 AT5G38020 32.867 143 74 6 55 184 235 368 5.15e-14 69.3
MsG0380014993.01.T01 AT3G21950 33.566 143 73 3 55 184 235 368 2.68e-13 67.4
MsG0380014993.01.T01 AT5G04380 33.613 119 71 3 67 184 267 378 1.59e-12 65.1
MsG0380014993.01.T01 AT3G21950 33.333 138 70 3 60 184 272 400 2.96e-12 64.3
MsG0380014993.01.T01 AT1G68040 34.951 103 55 2 56 158 244 334 9.59e-12 62.8

Find 38 sgRNAs with CRISPR-Local

Find 66 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGGGGTTCCTGGTTCATTTA+TGG 0.186917 3:-63697584 MsG0380014993.01.T01:CDS
ATCATTTGTCATCAATAAAT+TGG 0.187526 3:-63696938 MsG0380014993.01.T01:CDS
TGGAGGTTTCTGAAGTTAAT+TGG 0.202013 3:-63696918 MsG0380014993.01.T01:CDS
AAAGGCCCGTGTTACATCTA+TGG 0.297642 3:-63697604 MsG0380014993.01.T01:CDS
TGTTACATCTATGGGGTTCC+TGG 0.309701 3:-63697595 MsG0380014993.01.T01:CDS
ATCACATAGTTTCTCTTTGA+AGG 0.315688 3:+63697641 None:intergenic
ACAATATGGCACAATGCATT+AGG 0.317665 3:-63696825 MsG0380014993.01.T01:CDS
GATGGAGATGGATAATAGTT+AGG 0.322863 3:+63696991 None:intergenic
GGTGAACTTAGTCTTCTCTT+TGG 0.329569 3:+63696708 None:intergenic
CAGTCTTCAATGGCTATCTA+AGG 0.342755 3:-63697516 MsG0380014993.01.T01:intron
ACAAAATGCAAACTATTATC+TGG 0.350999 3:+63697551 None:intergenic
CTTTGGTGAAGGTGTCATTA+AGG 0.358741 3:-63696773 MsG0380014993.01.T01:CDS
AGAGAAACTATGTGATGAAA+TGG 0.370752 3:-63697634 MsG0380014993.01.T01:CDS
TAGAGATGATGGATACAATA+TGG 0.413499 3:-63696839 MsG0380014993.01.T01:CDS
TGTCAACGATATGCTAAGAT+TGG 0.419291 3:+63696687 None:intergenic
CAATATGGCACAATGCATTA+GGG 0.420742 3:-63696824 MsG0380014993.01.T01:CDS
AAGGCCCGTGTTACATCTAT+GGG 0.450002 3:-63697603 MsG0380014993.01.T01:CDS
TCAGAATCACTTAGAGATGA+TGG 0.456810 3:-63696850 MsG0380014993.01.T01:CDS
ATCTCCATCTGAAGTGAAGT+TGG 0.456867 3:-63696977 MsG0380014993.01.T01:CDS
CTAGTTAGTCACTTTGGTGA+AGG 0.467251 3:-63696784 MsG0380014993.01.T01:CDS
CCTTTGCTAGTTAGTCACTT+TGG 0.468922 3:-63696790 MsG0380014993.01.T01:CDS
ACTTCCAACTTCACTTCAGA+TGG 0.478421 3:+63696973 None:intergenic
ATTCCTCGTACAGTCTTCAA+TGG 0.498924 3:-63697526 MsG0380014993.01.T01:CDS
ATGGAGATGGATAATAGTTA+GGG 0.500415 3:+63696992 None:intergenic
ATTTGTCATCAATAAATTGG+AGG 0.518651 3:-63696935 MsG0380014993.01.T01:CDS
TGATGAAATGGAAACTGAAA+AGG 0.522452 3:-63697622 MsG0380014993.01.T01:CDS
TTTCTCTTTGAAGGTGTCAA+GGG 0.532238 3:+63697650 None:intergenic
GTTTCTCTTTGAAGGTGTCA+AGG 0.541705 3:+63697649 None:intergenic
AACTTCACTTCAGATGGAGA+TGG 0.545461 3:+63696979 None:intergenic
CATTTCAGATTCAAAGTCAA+AGG 0.547130 3:+63696873 None:intergenic
AAGTTGGAAGTTCTCAAAGA+AGG 0.569653 3:-63696961 MsG0380014993.01.T01:CDS
GGCACAATGCATTAGGGCTG+TGG 0.579915 3:-63696818 MsG0380014993.01.T01:CDS
CCAAAGTGACTAACTAGCAA+AGG 0.593693 3:+63696790 None:intergenic
AATTCTGCCATAAATGAACC+AGG 0.628715 3:+63697577 None:intergenic
GGAACCCCATAGATGTAACA+CGG 0.651299 3:+63697598 None:intergenic
GAACCCCATAGATGTAACAC+GGG 0.684498 3:+63697599 None:intergenic
TAGCCATTGAAGACTGTACG+AGG 0.694298 3:+63697523 None:intergenic
AGGCCCGTGTTACATCTATG+GGG 0.756005 3:-63697602 MsG0380014993.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ATAGAAAAATTTTAACTGAT+CGG - Chr3:63697614-63697633 MsG0380014993.01.T01:CDS 15.0%
!! ATCATTTGTCATCAATAAAT+TGG - Chr3:63697411-63697430 MsG0380014993.01.T01:intron 20.0%
!!! CAGTTAAAATTTTTCTATAG+CGG + Chr3:63697612-63697631 None:intergenic 20.0%
!!! TAGATATGAATATTTTGTGT+TGG - Chr3:63696902-63696921 MsG0380014993.01.T01:CDS 20.0%
! ACAAAATGCAAACTATTATC+TGG + Chr3:63696801-63696820 None:intergenic 25.0%
! ATTTGTCATCAATAAATTGG+AGG - Chr3:63697414-63697433 MsG0380014993.01.T01:intron 25.0%
! TTTAATCTACTCATGAAGAA+TGG - Chr3:63696878-63696897 MsG0380014993.01.T01:CDS 25.0%
!! CAAATGATTCTAACACTTTT+AGG - Chr3:63697087-63697106 MsG0380014993.01.T01:intron 25.0%
!! TATGAATATTTTGTGTTGGA+TGG - Chr3:63696906-63696925 MsG0380014993.01.T01:CDS 25.0%
!!! CAGATTTCTCTTTTTTTCTT+CGG - Chr3:63697034-63697053 MsG0380014993.01.T01:intron 25.0%
AATTATTCAATGTATGCTGC+AGG - Chr3:63697297-63697316 MsG0380014993.01.T01:intron 30.0%
AGAGAAACTATGTGATGAAA+TGG - Chr3:63696715-63696734 MsG0380014993.01.T01:CDS 30.0%
ATCACATAGTTTCTCTTTGA+AGG + Chr3:63696711-63696730 None:intergenic 30.0%
ATGGAGATGGATAATAGTTA+GGG + Chr3:63697360-63697379 None:intergenic 30.0%
ATTATTCAATGTATGCTGCA+GGG - Chr3:63697298-63697317 MsG0380014993.01.T01:intron 30.0%
CATTTCAGATTCAAAGTCAA+AGG + Chr3:63697479-63697498 None:intergenic 30.0%
TGATGAAATGGAAACTGAAA+AGG - Chr3:63696727-63696746 MsG0380014993.01.T01:CDS 30.0%
!! TAGAGATGATGGATACAATA+TGG - Chr3:63697510-63697529 MsG0380014993.01.T01:intron 30.0%
AAGTTGGAAGTTCTCAAAGA+AGG - Chr3:63697388-63697407 MsG0380014993.01.T01:intron 35.0%
AATTCTGCCATAAATGAACC+AGG + Chr3:63696775-63696794 None:intergenic 35.0%
ACAATATGGCACAATGCATT+AGG - Chr3:63697524-63697543 MsG0380014993.01.T01:CDS 35.0%
AGCACCTTCAACTAATTCTT+TGG + Chr3:63697067-63697086 None:intergenic 35.0%
CAATATGGCACAATGCATTA+GGG - Chr3:63697525-63697544 MsG0380014993.01.T01:CDS 35.0%
CTATGATATGATAGCTCAGT+TGG - Chr3:63697183-63697202 MsG0380014993.01.T01:intron 35.0%
GATGGAGATGGATAATAGTT+AGG + Chr3:63697361-63697380 None:intergenic 35.0%
TCAGAATCACTTAGAGATGA+TGG - Chr3:63697499-63697518 MsG0380014993.01.T01:intron 35.0%
TGTCAACGATATGCTAAGAT+TGG + Chr3:63697665-63697684 None:intergenic 35.0%
TTGTTACATTTGGGAACTCA+TGG - Chr3:63697143-63697162 MsG0380014993.01.T01:intron 35.0%
! TAAGCCTTGATGACATTTGA+GGG + Chr3:63696997-63697016 None:intergenic 35.0%
!! CAAGGAGTGTTGTTACATTT+GGG - Chr3:63697134-63697153 MsG0380014993.01.T01:intron 35.0%
!! TGGAGGTTTCTGAAGTTAAT+TGG - Chr3:63697431-63697450 MsG0380014993.01.T01:intron 35.0%
!! TTTCTCTTTGAAGGTGTCAA+GGG + Chr3:63696702-63696721 None:intergenic 35.0%
AACTTCACTTCAGATGGAGA+TGG + Chr3:63697373-63697392 None:intergenic 40.0%
ACTTCCAACTTCACTTCAGA+TGG + Chr3:63697379-63697398 None:intergenic 40.0%
ATTCCTCGTACAGTCTTCAA+TGG - Chr3:63696823-63696842 MsG0380014993.01.T01:CDS 40.0%
CAGTCTTCAATGGCTATCTA+AGG - Chr3:63696833-63696852 MsG0380014993.01.T01:CDS 40.0%
CCAAAGTGACTAACTAGCAA+AGG + Chr3:63697562-63697581 None:intergenic 40.0%
CCTTTGCTAGTTAGTCACTT+TGG - Chr3:63697559-63697578 MsG0380014993.01.T01:CDS 40.0%
CGTGCCAAAGAATTAGTTGA+AGG - Chr3:63697060-63697079 MsG0380014993.01.T01:intron 40.0%
GTGATTCATTAGGTTCCAGA+GGG - Chr3:63696928-63696947 MsG0380014993.01.T01:CDS 40.0%
GTGTTGGATGGTGATTCATT+AGG - Chr3:63696918-63696937 MsG0380014993.01.T01:CDS 40.0%
TAACAACACTCCTTGCTTGA+TGG + Chr3:63697129-63697148 None:intergenic 40.0%
! AAGCCTTGATGACATTTGAG+GGG + Chr3:63696996-63697015 None:intergenic 40.0%
! ATCTCCATCTGAAGTGAAGT+TGG - Chr3:63697372-63697391 MsG0380014993.01.T01:intron 40.0%
! CTAGTTAGTCACTTTGGTGA+AGG - Chr3:63697565-63697584 MsG0380014993.01.T01:CDS 40.0%
! GGTGAACTTAGTCTTCTCTT+TGG + Chr3:63697644-63697663 None:intergenic 40.0%
! GTAAGCCTTGATGACATTTG+AGG + Chr3:63696998-63697017 None:intergenic 40.0%
!! CTTTGGTGAAGGTGTCATTA+AGG - Chr3:63697576-63697595 MsG0380014993.01.T01:CDS 40.0%
!! GCAAGGAGTGTTGTTACATT+TGG - Chr3:63697133-63697152 MsG0380014993.01.T01:intron 40.0%
!! GTTTCTCTTTGAAGGTGTCA+AGG + Chr3:63696703-63696722 None:intergenic 40.0%
AAAGGCCCGTGTTACATCTA+TGG - Chr3:63696745-63696764 MsG0380014993.01.T01:CDS 45.0%
AAGCCCCTCAAATGTCATCA+AGG - Chr3:63696990-63697009 MsG0380014993.01.T01:CDS 45.0%
AAGGCCCGTGTTACATCTAT+GGG - Chr3:63696746-63696765 MsG0380014993.01.T01:CDS 45.0%
ATGCGACAATCCATCAAGCA+AGG - Chr3:63697116-63697135 MsG0380014993.01.T01:intron 45.0%
CATTTGGGAACTCATGGCTA+TGG - Chr3:63697149-63697168 MsG0380014993.01.T01:intron 45.0%
GAACCCCATAGATGTAACAC+GGG + Chr3:63696753-63696772 None:intergenic 45.0%
GGAACCCCATAGATGTAACA+CGG + Chr3:63696754-63696773 None:intergenic 45.0%
GGTGATTCATTAGGTTCCAG+AGG - Chr3:63696927-63696946 MsG0380014993.01.T01:CDS 45.0%
TAGCCATTGAAGACTGTACG+AGG + Chr3:63696829-63696848 None:intergenic 45.0%
TGGGGTTCCTGGTTCATTTA+TGG - Chr3:63696765-63696784 MsG0380014993.01.T01:CDS 45.0%
TGTTACATCTATGGGGTTCC+TGG - Chr3:63696754-63696773 MsG0380014993.01.T01:CDS 45.0%
AGGCCCGTGTTACATCTATG+GGG - Chr3:63696747-63696766 MsG0380014993.01.T01:CDS 50.0%
TTGAGGGGCTTGTGCTTGTA+AGG + Chr3:63696981-63697000 None:intergenic 50.0%
! TTGTTGTTGTCAGCACCCTC+TGG + Chr3:63696946-63696965 None:intergenic 50.0%
!! GAGGGTGCTGACAACAACAA+AGG - Chr3:63696946-63696965 MsG0380014993.01.T01:CDS 50.0%
GGCACAATGCATTAGGGCTG+TGG - Chr3:63697531-63697550 MsG0380014993.01.T01:CDS 55.0%
Chromosome Type Strat End Strand Name
Chr3 gene 63696675 63697696 63696675 ID=MsG0380014993.01;Name=MsG0380014993.01
Chr3 mRNA 63696675 63697696 63696675 ID=MsG0380014993.01.T01;Parent=MsG0380014993.01;Name=MsG0380014993.01.T01;_AED=0.29;_eAED=0.29;_QI=0|0|0|1|1|1|2|0|185
Chr3 exon 63697517 63697696 63697517 ID=MsG0380014993.01.T01:exon:6748;Parent=MsG0380014993.01.T01
Chr3 exon 63696675 63697052 63696675 ID=MsG0380014993.01.T01:exon:6747;Parent=MsG0380014993.01.T01
Chr3 CDS 63697517 63697696 63697517 ID=MsG0380014993.01.T01:cds;Parent=MsG0380014993.01.T01
Chr3 CDS 63696675 63697052 63696675 ID=MsG0380014993.01.T01:cds;Parent=MsG0380014993.01.T01
Gene Sequence

>MsG0380014993.01.T01

ATGACTTCAACAACGTATTCAAGTCCCTTGACACCTTCAAAGAGAAACTATGTGATGAAATGGAAACTGAAAAGGCCCGTGTTACATCTATGGGGTTCCTGGTTCATTTATGGCAGAATTTTTCCAGATAATAGTTTGCATTTTGTTCATTCCTCGTACAGTCTTCAATGGCTATCTAAGGGAATCATTAACGAAGAGAAAATCAATACTTTCAACATCCCTAACTATTATCCATCTCCATCTGAAGTGAAGTTGGAAGTTCTCAAAGAAGGATCATTTGTCATCAATAAATTGGAGGTTTCTGAAGTTAATTGGAATGCTCTTGATGATTGTAATGCCTTTGACTTTGAATCTGAAATGTCAGAATCACTTAGAGATGATGGATACAATATGGCACAATGCATTAGGGCTGTGGCTGAACCTTTGCTAGTTAGTCACTTTGGTGAAGGTGTCATTAAGGAGATTTTTGACCGCTATAGAAAAATTTTAACTGATCGGATGTCCAAAGAGAAGACTAAGTTCACCAATCTTAGCATATCGTTGACAAGAAAACCATGA

Protein sequence

>MsG0380014993.01.T01

MTSTTYSSPLTPSKRNYVMKWKLKRPVLHLWGSWFIYGRIFPDNSLHFVHSSYSLQWLSKGIINEEKINTFNIPNYYPSPSEVKLEVLKEGSFVINKLEVSEVNWNALDDCNAFDFESEMSESLRDDGYNMAQCIRAVAEPLLVSHFGEGVIKEIFDRYRKILTDRMSKEKTKFTNLSISLTRKP*