AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene67442


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene67442.t1 MTR_3g071740 97.845 232 4 1 1 231 1 232 1.55e-167 461
MS.gene67442.t1 MTR_5g083270 62.500 224 63 5 1 223 1 204 3.09e-87 257
MS.gene67442.t1 MTR_7g070050 65.027 183 55 3 57 231 4 185 1.05e-71 217
MS.gene67442.t1 MTR_4g014460 63.804 163 55 2 64 223 47 208 1.16e-69 213
MS.gene67442.t1 MTR_5g030500 53.939 165 70 2 69 227 47 211 7.08e-62 193
MS.gene67442.t1 MTR_1g016480 58.333 156 57 3 72 221 43 196 2.08e-59 186
MS.gene67442.t1 MTR_3g090980 53.374 163 71 4 63 222 18 178 2.93e-58 183
MS.gene67442.t1 MTR_1g028380 51.136 176 79 5 52 222 3 176 3.45e-58 182
MS.gene67442.t1 MTR_8g027805 54.777 157 66 3 69 222 21 175 5.94e-58 182
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene67442.t1 AT2G40330 64.407 177 58 1 53 224 35 211 1.28e-78 235
MS.gene67442.t1 AT5G05440 66.460 161 54 0 59 219 38 198 1.28e-75 227
MS.gene67442.t1 AT2G38310 71.257 167 48 0 65 231 38 204 4.12e-74 224
MS.gene67442.t1 AT1G01360 52.381 168 75 3 58 222 13 178 5.46e-59 184
MS.gene67442.t1 AT5G53160 55.414 157 65 4 69 222 22 176 1.67e-58 183
MS.gene67442.t1 AT4G27920 54.777 157 67 3 69 222 17 172 2.63e-58 182
MS.gene67442.t1 AT2G26040 51.765 170 76 3 66 230 22 190 2.53e-57 180
MS.gene67442.t1 AT4G17870 48.824 170 84 1 64 230 15 184 1.70e-56 178
MS.gene67442.t1 AT4G01026 50.000 168 79 3 58 222 15 180 4.71e-56 178
MS.gene67442.t1 AT1G73000 49.091 165 72 3 69 221 40 204 5.24e-51 165
MS.gene67442.t1 AT5G46790 47.753 178 87 1 51 222 29 206 4.51e-47 155
MS.gene67442.t1 AT5G46790 47.753 178 87 1 51 222 29 206 4.51e-47 155
MS.gene67442.t1 AT5G45860 56.849 146 60 2 79 222 10 154 1.39e-45 149
MS.gene67442.t1 AT5G45870 54.362 149 66 2 79 226 10 157 8.53e-45 147
MS.gene67442.t1 AT4G18620 46.835 158 76 2 77 226 7 164 5.15e-37 127
MS.gene67442.t1 AT5G53160 54.545 99 43 2 69 167 22 118 8.98e-33 116

Find 64 sgRNAs with CRISPR-Local

Find 68 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CGTGAAGTTCGTGTTGTTTC+AGG 0.146453 3.1:-58636263 MS.gene67442:CDS
GAAGATAAAGATGGTGGAAA+TGG 0.328183 3.1:+58636503 None:intergenic
GGTGGTGTTTGTGGTTGTCT+AGG 0.342795 3.1:+58636554 None:intergenic
ACAGGCCATACGGCGGAGAT+AGG 0.366876 3.1:+58636377 None:intergenic
ACCACAAACACCACCACCCA+CGG 0.385777 3.1:-58636546 MS.gene67442:CDS
TAAGTGGTTGCATCAGTTGT+AGG 0.402894 3.1:+58636605 None:intergenic
TTCATTCACTCGACGGAGAT+AGG 0.405446 3.1:-58636121 MS.gene67442:CDS
CTTTCAGTGCTTGACTCAGC+TGG 0.432971 3.1:+58636236 None:intergenic
CGACGCGCCGCCGTGGGTGG+TGG 0.441588 3.1:+58636536 None:intergenic
ACGACGGAGCAGCACTGGTT+TGG 0.446028 3.1:+58636419 None:intergenic
GTGGTGTTTGTGGTTGTCTA+GGG 0.450968 3.1:+58636555 None:intergenic
GTCATCAGCTTCAGTGTTGT+TGG 0.454648 3.1:-58636185 MS.gene67442:CDS
AAGATAAAGATGGTGGAAAT+GGG 0.456358 3.1:+58636504 None:intergenic
TCAGCTTCAGTGTTGTTGGT+GGG 0.460835 3.1:-58636181 MS.gene67442:CDS
CGTTGTAATTTACAGTCGTT+GGG 0.475281 3.1:-58636014 MS.gene67442:CDS
GAGATAACGTGTCTAGGACT+AGG 0.483808 3.1:+58636465 None:intergenic
ACGTTGTAATTTACAGTCGT+TGG 0.493660 3.1:-58636015 MS.gene67442:CDS
TGAGTCAAGCACTGAAAGGC+TGG 0.494711 3.1:-58636231 MS.gene67442:CDS
GTGTGACGACGGAGCAGCAC+TGG 0.495331 3.1:+58636414 None:intergenic
GGCGGAGATAGGGGCGGAGA+TGG 0.499951 3.1:+58636388 None:intergenic
CAGGCCATACGGCGGAGATA+GGG 0.510475 3.1:+58636378 None:intergenic
GTTTGCTATGGCTAAGTAAG+TGG 0.511458 3.1:+58636589 None:intergenic
TAGGACTAGGGTTCCTCCGT+TGG 0.513644 3.1:+58636478 None:intergenic
ATCAGCTTCAGTGTTGTTGG+TGG 0.514963 3.1:-58636182 MS.gene67442:CDS
AAGTGGTTGCATCAGTTGTA+GGG 0.519210 3.1:+58636606 None:intergenic
GCAGTTTGCACCGTTTGCTA+TGG 0.520707 3.1:+58636577 None:intergenic
GTTCCTTCATGATTATTGCT+CGG 0.532104 3.1:+58635959 None:intergenic
AACTAAACGACGCGCCGCCG+TGG 0.533995 3.1:+58636529 None:intergenic
CAGCTTCAGTGTTGTTGGTG+GGG 0.536200 3.1:-58636180 MS.gene67442:CDS
AGATAACGTGTCTAGGACTA+GGG 0.537277 3.1:+58636466 None:intergenic
AGGCCATACGGCGGAGATAG+GGG 0.537578 3.1:+58636379 None:intergenic
AAAAGCTGCCATGTCATCAC+CGG 0.551768 3.1:-58636311 MS.gene67442:CDS
CCATCTTTATCTTCTTCCAA+CGG 0.556960 3.1:-58636494 MS.gene67442:CDS
CCGCCCCTATCTCCGCCGTA+TGG 0.564976 3.1:-58636382 MS.gene67442:CDS
CTTCACCACGCACACATGGT+TGG 0.565295 3.1:-58636443 MS.gene67442:CDS
AACTTCACGAACAGCGCCGA+CGG 0.566383 3.1:+58636277 None:intergenic
GCGTCGAACTACAGGCCATA+CGG 0.566857 3.1:+58636367 None:intergenic
CAGCTGAGTCAAGCACTGAA+AGG 0.571420 3.1:-58636235 MS.gene67442:CDS
GGTGAAGAGATAACGTGTCT+AGG 0.573419 3.1:+58636459 None:intergenic
AATGAAGCGTCGTCACCGAC+CGG 0.581297 3.1:+58636138 None:intergenic
GCCGTGGGTGGTGGTGTTTG+TGG 0.587797 3.1:+58636545 None:intergenic
ATCTCTTCACCACGCACACA+TGG 0.590375 3.1:-58636447 MS.gene67442:CDS
ACTTACTTAGCCATAGCAAA+CGG 0.594361 3.1:-58636587 MS.gene67442:CDS
ACTAAACGACGCGCCGCCGT+GGG 0.595821 3.1:+58636530 None:intergenic
TCCTCCTTCGTGTTACCTTG+CGG 0.597704 3.1:+58636065 None:intergenic
AAACGACGCGCCGCCGTGGG+TGG 0.603918 3.1:+58636533 None:intergenic
ACCGGTAGTTTCTCAGACGG+TGG 0.613294 3.1:+58636156 None:intergenic
TTGGAAGAAGATAAAGATGG+TGG 0.620854 3.1:+58636497 None:intergenic
TCTTTATCTTCTTCCAACGG+AGG 0.632116 3.1:-58636491 MS.gene67442:CDS
CCATACGGCGGAGATAGGGG+CGG 0.649626 3.1:+58636382 None:intergenic
ACCGGAGAAAACATCACCGT+CGG 0.653865 3.1:-58636293 MS.gene67442:CDS
TACGTCGTTGACGTACCGCA+AGG 0.658251 3.1:-58636080 MS.gene67442:CDS
TTGGTCCAACCATGTGTGCG+TGG 0.662505 3.1:+58636438 None:intergenic
CCGTTGGAAGAAGATAAAGA+TGG 0.665346 3.1:+58636494 None:intergenic
ACCGCAAGGTAACACGAAGG+AGG 0.666880 3.1:-58636066 MS.gene67442:CDS
ACCACCGTCTGAGAAACTAC+CGG 0.679568 3.1:-58636157 MS.gene67442:CDS
CGACGCTTCGAAAATCCACA+AGG 0.680557 3.1:-58636350 MS.gene67442:CDS
ACAAACACCACCACCCACGG+CGG 0.682673 3.1:-58636543 MS.gene67442:CDS
ACGACGCTTCATTCACTCGA+CGG 0.685079 3.1:-58636128 MS.gene67442:CDS
GGAGATGGTTTGTGTGACGA+CGG 0.685568 3.1:+58636403 None:intergenic
CCGACCGGTAGTTTCTCAGA+CGG 0.717412 3.1:+58636153 None:intergenic
TCGAACTACAGGCCATACGG+CGG 0.723216 3.1:+58636370 None:intergenic
CCGTCTGAGAAACTACCGGT+CGG 0.737535 3.1:-58636153 MS.gene67442:CDS
CGTACCGCAAGGTAACACGA+AGG 0.792249 3.1:-58636069 MS.gene67442:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAGATAAAGATGGTGGAAAT+GGG + chr3.1:58636114-58636133 None:intergenic 30.0%
ACGTTGTAATTTACAGTCGT+TGG - chr3.1:58636600-58636619 MS.gene67442:CDS 35.0%
ACTTACTTAGCCATAGCAAA+CGG - chr3.1:58636028-58636047 MS.gene67442:CDS 35.0%
AGCTGAAGAGAAAAACTTGA+TGG + chr3.1:58635977-58635996 None:intergenic 35.0%
CCATCTTTATCTTCTTCCAA+CGG - chr3.1:58636121-58636140 MS.gene67442:CDS 35.0%
CGTTGTAATTTACAGTCGTT+GGG - chr3.1:58636601-58636620 MS.gene67442:CDS 35.0%
TTGGAAGAAGATAAAGATGG+TGG + chr3.1:58636121-58636140 None:intergenic 35.0%
! ACGAAGTTTTTGTATCCTTG+TGG + chr3.1:58636283-58636302 None:intergenic 35.0%
!! GAAGATAAAGATGGTGGAAA+TGG + chr3.1:58636115-58636134 None:intergenic 35.0%
AAGTGGTTGCATCAGTTGTA+GGG + chr3.1:58636012-58636031 None:intergenic 40.0%
CCGTTGGAAGAAGATAAAGA+TGG + chr3.1:58636124-58636143 None:intergenic 40.0%
TAAGTGGTTGCATCAGTTGT+AGG + chr3.1:58636013-58636032 None:intergenic 40.0%
TCTTTATCTTCTTCCAACGG+AGG - chr3.1:58636124-58636143 MS.gene67442:CDS 40.0%
! AGATAACGTGTCTAGGACTA+GGG + chr3.1:58636152-58636171 None:intergenic 40.0%
!! GTTTGCTATGGCTAAGTAAG+TGG + chr3.1:58636029-58636048 None:intergenic 40.0%
AAAAGCTGCCATGTCATCAC+CGG - chr3.1:58636304-58636323 MS.gene67442:CDS 45.0%
GGTGAAGAGATAACGTGTCT+AGG + chr3.1:58636159-58636178 None:intergenic 45.0%
GTCATCAGCTTCAGTGTTGT+TGG - chr3.1:58636430-58636449 MS.gene67442:CDS 45.0%
GTGGTGTTTGTGGTTGTCTA+GGG + chr3.1:58636063-58636082 None:intergenic 45.0%
TTCATTCACTCGACGGAGAT+AGG - chr3.1:58636494-58636513 MS.gene67442:CDS 45.0%
! ATCAGCTTCAGTGTTGTTGG+TGG - chr3.1:58636433-58636452 MS.gene67442:CDS 45.0%
! GAGATAACGTGTCTAGGACT+AGG + chr3.1:58636153-58636172 None:intergenic 45.0%
! TCAGCTTCAGTGTTGTTGGT+GGG - chr3.1:58636434-58636453 MS.gene67442:CDS 45.0%
! TGTTTTCTCCGGTGATGACA+TGG + chr3.1:58636315-58636334 None:intergenic 45.0%
!! CGTGAAGTTCGTGTTGTTTC+AGG - chr3.1:58636352-58636371 MS.gene67442:CDS 45.0%
!!! TTTTCGAAGCGTCGAACTAC+AGG + chr3.1:58636259-58636278 None:intergenic 45.0%
ACCACCGTCTGAGAAACTAC+CGG - chr3.1:58636458-58636477 MS.gene67442:CDS 50.0%
ACCGGAGAAAACATCACCGT+CGG - chr3.1:58636322-58636341 MS.gene67442:CDS 50.0%
ACGACGCTTCATTCACTCGA+CGG - chr3.1:58636487-58636506 MS.gene67442:CDS 50.0%
ATCTCTTCACCACGCACACA+TGG - chr3.1:58636168-58636187 MS.gene67442:CDS 50.0%
CGACGCTTCGAAAATCCACA+AGG - chr3.1:58636265-58636284 MS.gene67442:CDS 50.0%
CTTTCAGTGCTTGACTCAGC+TGG + chr3.1:58636382-58636401 None:intergenic 50.0%
GGTGGTGTTTGTGGTTGTCT+AGG + chr3.1:58636064-58636083 None:intergenic 50.0%
TCCTCCTTCGTGTTACCTTG+CGG + chr3.1:58636553-58636572 None:intergenic 50.0%
! CAGCTTCAGTGTTGTTGGTG+GGG - chr3.1:58636435-58636454 MS.gene67442:CDS 50.0%
! GCAGTTTGCACCGTTTGCTA+TGG + chr3.1:58636041-58636060 None:intergenic 50.0%
! GGAGATGGTTTGTGTGACGA+CGG + chr3.1:58636215-58636234 None:intergenic 50.0%
!! CAGCTGAGTCAAGCACTGAA+AGG - chr3.1:58636380-58636399 MS.gene67442:CDS 50.0%
!! TGAGTCAAGCACTGAAAGGC+TGG - chr3.1:58636384-58636403 MS.gene67442:CDS 50.0%
ACCACAAACACCACCACCCA+CGG - chr3.1:58636069-58636088 MS.gene67442:CDS 55.0%
ACCGCAAGGTAACACGAAGG+AGG - chr3.1:58636549-58636568 MS.gene67442:CDS 55.0%
ACCGGTAGTTTCTCAGACGG+TGG + chr3.1:58636462-58636481 None:intergenic 55.0%
CCGACCGGTAGTTTCTCAGA+CGG + chr3.1:58636465-58636484 None:intergenic 55.0%
CCGTCTGAGAAACTACCGGT+CGG - chr3.1:58636462-58636481 MS.gene67442:CDS 55.0%
CGTACCGCAAGGTAACACGA+AGG - chr3.1:58636546-58636565 MS.gene67442:CDS 55.0%
CTTCACCACGCACACATGGT+TGG - chr3.1:58636172-58636191 MS.gene67442:CDS 55.0%
GCGTCGAACTACAGGCCATA+CGG + chr3.1:58636251-58636270 None:intergenic 55.0%
TACGTCGTTGACGTACCGCA+AGG - chr3.1:58636535-58636554 MS.gene67442:CDS 55.0%
TAGGACTAGGGTTCCTCCGT+TGG + chr3.1:58636140-58636159 None:intergenic 55.0%
TCGAACTACAGGCCATACGG+CGG + chr3.1:58636248-58636267 None:intergenic 55.0%
TTGGTCCAACCATGTGTGCG+TGG + chr3.1:58636180-58636199 None:intergenic 55.0%
! AACTTCACGAACAGCGCCGA+CGG + chr3.1:58636341-58636360 None:intergenic 55.0%
! GCCGACGGTGATGTTTTCTC+CGG + chr3.1:58636326-58636345 None:intergenic 55.0%
!! AATGAAGCGTCGTCACCGAC+CGG + chr3.1:58636480-58636499 None:intergenic 55.0%
ACAAACACCACCACCCACGG+CGG - chr3.1:58636072-58636091 MS.gene67442:CDS 60.0%
ACAGGCCATACGGCGGAGAT+AGG + chr3.1:58636241-58636260 None:intergenic 60.0%
AGGCCATACGGCGGAGATAG+GGG + chr3.1:58636239-58636258 None:intergenic 60.0%
CAGGCCATACGGCGGAGATA+GGG + chr3.1:58636240-58636259 None:intergenic 60.0%
!! ACGACGGAGCAGCACTGGTT+TGG + chr3.1:58636199-58636218 None:intergenic 60.0%
AACTAAACGACGCGCCGCCG+TGG + chr3.1:58636089-58636108 None:intergenic 65.0%
ACTAAACGACGCGCCGCCGT+GGG + chr3.1:58636088-58636107 None:intergenic 65.0%
CCATACGGCGGAGATAGGGG+CGG + chr3.1:58636236-58636255 None:intergenic 65.0%
GTGTGACGACGGAGCAGCAC+TGG + chr3.1:58636204-58636223 None:intergenic 65.0%
! GCCGTGGGTGGTGGTGTTTG+TGG + chr3.1:58636073-58636092 None:intergenic 65.0%
CCGCCCCTATCTCCGCCGTA+TGG - chr3.1:58636233-58636252 MS.gene67442:CDS 70.0%
GGCGGAGATAGGGGCGGAGA+TGG + chr3.1:58636230-58636249 None:intergenic 70.0%
AAACGACGCGCCGCCGTGGG+TGG + chr3.1:58636085-58636104 None:intergenic 75.0%
! CGACGCGCCGCCGTGGGTGG+TGG + chr3.1:58636082-58636101 None:intergenic 85.0%


Chromosome Type Strat End Strand Name
chr3.1 gene 58635971 58636666 58635971 ID=MS.gene67442
chr3.1 mRNA 58635971 58636666 58635971 ID=MS.gene67442.t1;Parent=MS.gene67442
chr3.1 exon 58635971 58636666 58635971 ID=MS.gene67442.t1.exon1;Parent=MS.gene67442.t1
chr3.1 CDS 58635971 58636666 58635971 ID=cds.MS.gene67442.t1;Parent=MS.gene67442.t1
Gene Sequence

>MS.gene67442

ATGCCATCAAGTTTTTCTCTTCAGCTTGAGAGATTCAACCCTACAACTGATGCAACCACTTACTTAGCCATAGCAAACGGTGCAAACTGCCCTAGACAACCACAAACACCACCACCCACGGCGGCGCGTCGTTTAGTTATCCCATTTCCACCATCTTTATCTTCTTCCAACGGAGGAACCCTAGTCCTAGACACGTTATCTCTTCACCACGCACACATGGTTGGACCAAACCAGTGCTGCTCCGTCGTCACACAAACCATCTCCGCCCCTATCTCCGCCGTATGGCCTGTAGTTCGACGCTTCGAAAATCCACAAGGATACAAAAACTTCGTCAAAAGCTGCCATGTCATCACCGGAGAAAACATCACCGTCGGCGCTGTTCGTGAAGTTCGTGTTGTTTCAGGACTTCCAGCTGAGTCAAGCACTGAAAGGCTGGAGATTCTTGACGATGAACGACACGTCATCAGCTTCAGTGTTGTTGGTGGGGACCACCGTCTGAGAAACTACCGGTCGGTGACGACGCTTCATTCACTCGACGGAGATAGGACACTTGTCATTGAATCATACGTCGTTGACGTACCGCAAGGTAACACGAAGGAGGAAACGTGTTTTTTTGTTGATACTATTGTACGTTGTAATTTACAGTCGTTGGGTCAGATCGCTGAGAATACTATCAGAAACAACTCCGAGCAATAA

Protein sequence

>MS.gene67442.t1

MPSSFSLQLERFNPTTDATTYLAIANGANCPRQPQTPPPTAARRLVIPFPPSLSSSNGGTLVLDTLSLHHAHMVGPNQCCSVVTQTISAPISAVWPVVRRFENPQGYKNFVKSCHVITGENITVGAVREVRVVSGLPAESSTERLEILDDERHVISFSVVGGDHRLRNYRSVTTLHSLDGDRTLVIESYVVDVPQGNTKEETCFFVDTIVRCNLQSLGQIAENTIRNNSEQ