AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene067464

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene067464.t1 MTR_2g104900 97.571 247 6 0 1 247 1 247 0.0 499
MS.gene067464.t1 MTR_4g006575 52.083 240 80 11 19 247 9 224 1.75e-57 182
MS.gene067464.t1 MTR_4g006600 52.083 240 80 11 19 247 9 224 1.75e-57 182
MS.gene067464.t1 MTR_1g013130 35.563 284 124 13 1 247 1 262 1.90e-34 124
MS.gene067464.t1 MTR_3g106230 44.379 169 76 8 34 187 25 190 2.24e-32 118
MS.gene067464.t1 MTR_5g077370 67.532 77 17 3 80 155 86 155 9.59e-27 103
MS.gene067464.t1 MTR_1g033340 64.935 77 22 2 81 157 97 168 2.23e-26 103
MS.gene067464.t1 MTR_3g065020 61.728 81 23 3 76 155 80 153 8.64e-25 98.6
MS.gene067464.t1 MTR_4g128340 54.667 75 23 2 78 152 42 105 1.67e-17 77.8
MS.gene067464.t1 MTR_1g107055 36.232 138 69 4 24 159 12 132 3.61e-16 74.7
MS.gene067464.t1 MTR_7g086860 49.254 67 27 2 60 119 2 68 1.20e-12 64.3
MS.gene067464.t1 MTR_5g008310 40.206 97 39 3 77 164 68 154 2.90e-12 65.9
MS.gene067464.t1 MTR_5g008280 42.000 100 49 3 69 164 34 128 4.75e-12 65.5
MS.gene067464.t1 MTR_3g011990 38.356 146 63 9 34 164 44 177 6.79e-12 64.3
MS.gene067464.t1 MTR_8g466760 44.086 93 34 4 79 164 96 177 8.05e-12 64.3
MS.gene067464.t1 MTR_7g083210 75.758 33 8 0 81 113 39 71 1.08e-11 62.4
MS.gene067464.t1 MTR_5g008320 39.175 97 40 3 77 164 68 154 1.08e-11 63.9
MS.gene067464.t1 MTR_3g012010 41.414 99 46 3 73 164 90 183 6.17e-11 61.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene067464.t1 AT5G10970 39.526 253 120 11 13 247 35 272 6.29e-38 134
MS.gene067464.t1 AT1G80730 41.026 234 93 11 32 247 22 228 4.86e-34 122
MS.gene067464.t1 AT5G25160 41.475 217 97 9 48 247 32 235 1.65e-33 121
MS.gene067464.t1 AT1G24625 41.538 130 40 4 28 157 29 122 2.89e-21 89.0
MS.gene067464.t1 AT1G66140 55.682 88 25 2 81 154 83 170 9.69e-21 88.6
MS.gene067464.t1 AT5G57520 57.143 63 24 1 79 138 48 110 6.10e-17 75.9
MS.gene067464.t1 AT5G14010 76.471 34 8 0 81 114 36 69 7.27e-13 65.1
MS.gene067464.t1 AT5G01860 57.778 45 19 0 70 114 54 98 4.24e-12 63.9

Find 36 sgRNAs with CRISPR-Local

Find 47 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCTCCAAGAAAGGTGCAAAA+TGG 0.323012 2.4:+755676 MS.gene067464:CDS
GGCAGCTTCTGCCACTGGTT+TGG 0.325271 2.4:-755553 None:intergenic
TGAACACAGGTACTCAAGTA+TGG 0.334170 2.4:+755405 MS.gene067464:CDS
ACCATCATCACTTGGAATTC+AGG 0.350325 2.4:+755462 MS.gene067464:CDS
GAAAATTTCCCTGATCTTGT+AGG 0.357308 2.4:-755655 None:intergenic
AGAAAGGTGCAAAATGGATT+TGG 0.360298 2.4:+755682 MS.gene067464:CDS
TTTCCCTGATCTTGTAGGTA+TGG 0.467787 2.4:-755650 None:intergenic
AACATGGCTCTAATCTTAGA+AGG 0.477004 2.4:-755039 None:intergenic
ATATAGGCAGCTTCTGCCAC+TGG 0.477130 2.4:-755558 None:intergenic
ACACAAAAGAGAAAGAACTA+TGG 0.484621 2.4:+755345 MS.gene067464:CDS
GTAAAAGCACTCAGAGTTTG+AGG 0.499487 2.4:-755765 None:intergenic
AAGGTGCAAAATGGATTTGG+AGG 0.500419 2.4:+755685 MS.gene067464:CDS
ACATGAAGATTCCTTGATGC+TGG 0.502045 2.4:-755589 None:intergenic
TCATCACAAGAATCTTTACT+AGG 0.516480 2.4:-755148 None:intergenic
GATGCTGGTTGTGAATATAT+AGG 0.519086 2.4:-755574 None:intergenic
TCTTCATCGGAATCTAATCA+TGG 0.524262 2.4:+755235 MS.gene067464:CDS
CATGTTGAGGCAGAAACTGA+TGG 0.531135 2.4:+755607 MS.gene067464:CDS
ATGGCTTCTCTACCTTTGCA+TGG 0.537338 2.4:+755424 MS.gene067464:CDS
AGTGCCATACCTACAAGATC+AGG 0.538472 2.4:+755646 MS.gene067464:CDS
CGATGAAGAGTTTATCGACA+TGG 0.551961 2.4:-755221 None:intergenic
TTCGGTTTGTCGCGTTACTG+TGG 0.557649 2.4:+755529 MS.gene067464:CDS
ACCTGAATTCCAAGTGATGA+TGG 0.560861 2.4:-755463 None:intergenic
TATAGTTCACAGGCACTTGG+TGG 0.564578 2.4:+755310 MS.gene067464:CDS
TGTAGGTATGGCACTAGTCA+AGG 0.572932 2.4:-755638 None:intergenic
TATATTCACAACCAGCATCA+AGG 0.576962 2.4:+755578 MS.gene067464:CDS
TAGTTGCATGAGAAAATCCT+TGG 0.584802 2.4:-755271 None:intergenic
AAAAGATCACCATCATCACT+TGG 0.591415 2.4:+755454 MS.gene067464:CDS
CATGTCGATAAACTCTTCAT+CGG 0.592241 2.4:+755222 MS.gene067464:CDS
ATCAAGGAATCTTCATGTTG+AGG 0.598145 2.4:+755594 MS.gene067464:CDS
TAAAAGCACTCAGAGTTTGA+GGG 0.622554 2.4:-755764 None:intergenic
ATGGTAATGAATTAGAGCCA+AGG 0.629515 2.4:+755254 MS.gene067464:CDS
GTTACTGTGGTCCAAACCAG+TGG 0.634342 2.4:+755542 MS.gene067464:CDS
GAAGAGTTTATCGACATGGA+CGG 0.645110 2.4:-755217 None:intergenic
TTCAAATTATTAGATAAACA+TGG 0.647436 2.4:-755055 None:intergenic
AAGTTTGAAGAATAAACAAG+AGG 0.648051 2.4:+755720 MS.gene067464:CDS
GTGCCATACCTACAAGATCA+GGG 0.648274 2.4:+755647 MS.gene067464:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTCAAATTATTAGATAAACA+TGG - chr2.4:755058-755077 None:intergenic 15.0%
! AAGTTTGAAGAATAAACAAG+AGG + chr2.4:755720-755739 MS.gene067464:CDS 25.0%
!!! AAGAAAGTTTTATAGTTCAC+AGG + chr2.4:755300-755319 MS.gene067464:CDS 25.0%
AAAAACGGTGTTTGATAAGA+AGG - chr2.4:755511-755530 None:intergenic 30.0%
AAAGAACTATGGCAAAAAGA+GGG + chr2.4:755356-755375 MS.gene067464:CDS 30.0%
ACACAAAAGAGAAAGAACTA+TGG + chr2.4:755345-755364 MS.gene067464:CDS 30.0%
TCATCACAAGAATCTTTACT+AGG - chr2.4:755151-755170 None:intergenic 30.0%
! TTTCTCTTTTGTGTGCATTT+TGG - chr2.4:755339-755358 None:intergenic 30.0%
!! TCTTATCAAACACCGTTTTT+CGG + chr2.4:755511-755530 MS.gene067464:CDS 30.0%
AAAAGATCACCATCATCACT+TGG + chr2.4:755454-755473 MS.gene067464:CDS 35.0%
ATCAAGGAATCTTCATGTTG+AGG + chr2.4:755594-755613 MS.gene067464:CDS 35.0%
CATGTCGATAAACTCTTCAT+CGG + chr2.4:755222-755241 MS.gene067464:CDS 35.0%
GAAAATTTCCCTGATCTTGT+AGG - chr2.4:755658-755677 None:intergenic 35.0%
GAAAGAACTATGGCAAAAAG+AGG + chr2.4:755355-755374 MS.gene067464:CDS 35.0%
TAGTTGCATGAGAAAATCCT+TGG - chr2.4:755274-755293 None:intergenic 35.0%
TATATTCACAACCAGCATCA+AGG + chr2.4:755578-755597 MS.gene067464:CDS 35.0%
TCTTCATCGGAATCTAATCA+TGG + chr2.4:755235-755254 MS.gene067464:CDS 35.0%
! AATCCATTTTGCACCTTTCT+TGG - chr2.4:755682-755701 None:intergenic 35.0%
! AGAAAGGTGCAAAATGGATT+TGG + chr2.4:755682-755701 MS.gene067464:CDS 35.0%
! AGGGAAATTTTCTCCAAGAA+AGG + chr2.4:755666-755685 MS.gene067464:CDS 35.0%
! ATGGTAATGAATTAGAGCCA+AGG + chr2.4:755254-755273 MS.gene067464:CDS 35.0%
! CTTTTATAAGAGCCATGCAA+AGG - chr2.4:755439-755458 None:intergenic 35.0%
! GATGCTGGTTGTGAATATAT+AGG - chr2.4:755577-755596 None:intergenic 35.0%
! TTTTATAGTTCACAGGCACT+TGG + chr2.4:755307-755326 MS.gene067464:CDS 35.0%
!! AACATGGCTCTAATCTTAGA+AGG - chr2.4:755042-755061 None:intergenic 35.0%
ACATGAAGATTCCTTGATGC+TGG - chr2.4:755592-755611 None:intergenic 40.0%
ACCATCATCACTTGGAATTC+AGG + chr2.4:755462-755481 MS.gene067464:CDS 40.0%
ACCTGAATTCCAAGTGATGA+TGG - chr2.4:755466-755485 None:intergenic 40.0%
CGATGAAGAGTTTATCGACA+TGG - chr2.4:755224-755243 None:intergenic 40.0%
GAAGAGTTTATCGACATGGA+CGG - chr2.4:755220-755239 None:intergenic 40.0%
TAACGCGACAAACCGAAAAA+CGG - chr2.4:755526-755545 None:intergenic 40.0%
TGAACACAGGTACTCAAGTA+TGG + chr2.4:755405-755424 MS.gene067464:CDS 40.0%
TTTCCCTGATCTTGTAGGTA+TGG - chr2.4:755653-755672 None:intergenic 40.0%
! AAAAAGAGGGCACAAATCTG+TGG + chr2.4:755369-755388 MS.gene067464:CDS 40.0%
! AAGGTGCAAAATGGATTTGG+AGG + chr2.4:755685-755704 MS.gene067464:CDS 40.0%
! CTTCGCTAGATTTTGAACAC+AGG + chr2.4:755392-755411 MS.gene067464:CDS 40.0%
! TCTCCAAGAAAGGTGCAAAA+TGG + chr2.4:755676-755695 MS.gene067464:CDS 40.0%
AGTGCCATACCTACAAGATC+AGG + chr2.4:755646-755665 MS.gene067464:CDS 45.0%
ATGGCTTCTCTACCTTTGCA+TGG + chr2.4:755424-755443 MS.gene067464:CDS 45.0%
CATGTTGAGGCAGAAACTGA+TGG + chr2.4:755607-755626 MS.gene067464:CDS 45.0%
GTGCCATACCTACAAGATCA+GGG + chr2.4:755647-755666 MS.gene067464:CDS 45.0%
TATAGTTCACAGGCACTTGG+TGG + chr2.4:755310-755329 MS.gene067464:CDS 45.0%
TGTAGGTATGGCACTAGTCA+AGG - chr2.4:755641-755660 None:intergenic 45.0%
ATATAGGCAGCTTCTGCCAC+TGG - chr2.4:755561-755580 None:intergenic 50.0%
GTTACTGTGGTCCAAACCAG+TGG + chr2.4:755542-755561 MS.gene067464:CDS 50.0%
! TTCGGTTTGTCGCGTTACTG+TGG + chr2.4:755529-755548 MS.gene067464:CDS 50.0%
! GGCAGCTTCTGCCACTGGTT+TGG - chr2.4:755556-755575 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr2.4 gene 755034 755777 755034 ID=MS.gene067464
chr2.4 mRNA 755034 755777 755034 ID=MS.gene067464.t1;Parent=MS.gene067464
chr2.4 exon 755034 755777 755034 ID=MS.gene067464.t1.exon1;Parent=MS.gene067464.t1
chr2.4 CDS 755034 755777 755034 ID=cds.MS.gene067464.t1;Parent=MS.gene067464.t1
Gene Sequence

>MS.gene067464

ATGGACCTTCTAAGATTAGAGCCATGTTTATCTAATAATTTGAACATCTCATTTTCTGAGAAGAGACAAACAGAAAATGAAGAGAAAAAACATCTTGTACTAGATTTAACTCTTCCTAGTAAAGATTCTTGTGATGATGAGTCAAAACAAGAACTCAATCTCATAAACTGTTTCGATACAGAACCGTCCATGTCGATAAACTCTTCATCGGAATCTAATCATGGTAATGAATTAGAGCCAAGGATTTTCTCATGCAACTATTGTCAAAGAAAGTTTTATAGTTCACAGGCACTTGGTGGACACCAAAATGCACACAAAAGAGAAAGAACTATGGCAAAAAGAGGGCACAAATCTGTGGCTTCGCTAGATTTTGAACACAGGTACTCAAGTATGGCTTCTCTACCTTTGCATGGCTCTTATAAAAGATCACCATCATCACTTGGAATTCAGGTGCACTCTTCTATGATTCAAAAACCTTCTTATCAAACACCGTTTTTCGGTTTGTCGCGTTACTGTGGTCCAAACCAGTGGCAGAAGCTGCCTATATATTCACAACCAGCATCAAGGAATCTTCATGTTGAGGCAGAAACTGATGGATCATCATCCTTGACTAGTGCCATACCTACAAGATCAGGGAAATTTTCTCCAAGAAAGGTGCAAAATGGATTTGGAGGTTATAATGCTACAAGTTTGAAGAATAAACAAGAGGAGTTGCAGAAGCTTGACTTGTCCCTCAAACTCTGA
Protein sequence

>MS.gene067464.t1

MDLLRLEPCLSNNLNISFSEKRQTENEEKKHLVLDLTLPSKDSCDDESKQELNLINCFDTEPSMSINSSSESNHGNELEPRIFSCNYCQRKFYSSQALGGHQNAHKRERTMAKRGHKSVASLDFEHRYSSMASLPLHGSYKRSPSSLGIQVHSSMIQKPSYQTPFFGLSRYCGPNQWQKLPIYSQPASRNLHVEAETDGSSSLTSAIPTRSGKFSPRKVQNGFGGYNATSLKNKQEELQKLDLSLKL