RLG00000009018

Splicing factor 1 helix-hairpin domain

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr2
Physical Location & Seq
Reverse (-)
45148447 .. 45149317
871 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000009018

Sequence Viewer

Length: 747 bp
ATGGATGATGAGTACCAGAAATTTTTGGCCGAGTCTGGTGGGACAATGTCTGAATCAGTAGCCAAGCAGACGGCTACTTTGGCTCTTGGCACATGCAATTCAGTAAGCAATCTTCCTTGGGTTAACAATGCTGGGAATGCTATTAGTACAGCAAATCTAGGATTGGGCTCAACGAGATTGAAGCCTCCCAAGGAATATGATGACACAAATTTGTACATCGAGTACTTGCCACCTATTCTTGATGATGTTGGTTTGATTGGGTTGTTTTCATGTTTAGGCAATATTGTGATGTGCAAAGTGATGAAGGACCGGGCTACTGGATTGAGTAAAGGTTATGGATTTGTGAGGTATGCTGCTGTTCAAATGGGTAATAGTGCTATTGCAAGCATGATTGCTGTCCGAGTTGCTGACAAGCCACCACCTCCTGTTATGTCTCCTGGACCACCAGCTTCGATAATGTCACCACACCAGCCTATTGGCGTGTATCCACTGGACCTCTTTGACAACAAGAAGAAGATGAATAATATCAATTATGTCAGGAGGGTGTTTACCTTGAACAACTGTGAGAAGCTCATTCTACAGCACCTTGGATTCGTGAAGGATGTTGTGGACTCTGATGACTTGCCGCTCAACATCTCTTGTGAGATGTTTCCACAAAACAAGATTTTGAAGACGGTCAGAACAGAGCTCAATTGGCTGACCGTTGCTACCACTCCACAAAAAGCAGTGAGGAACTTACAAGCTTGA

Protein Analysis

249

Amino Acids

27.11

Weight (kDa)

8.21

Isoelectric Point (pI)

50.08

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RRM_1 PF00076 71 - 130 1.5e-08 RNA recognition motif
HSP90 PF00183 163 - 230 1.5e-19 Hsp90 protein
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready

Orthologous Genes (Group: OG0000335)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G52640
fragaria_vesca FvH4_2g04730 FvH4_2g04730 FvH4_2g04730 FvH4_2g13180 FvH4_7g30260 FvH4_7g30272
malus_domestica MD00G1081900.v1.1 MD01G1208700.v1.1 MD07G1279100.v1.1 MD07G1279200.v1.1 MD11G1152300.v1.1 MD14G1110500.v1.1 MD14G1110600.v1.1
prunus_persica Prupe.2G301300_v2.0.a1 Prupe.5G041100_v2.0.a1 Prupe.5G105600_v2.0.a1
pyrus_communis pycom01g21930 pycom07g25400 pycom09g11140 pycom14g10530
rosa_chinensis RchiOBHm_Chr1g0327061 RchiOBHm_Chr1g0378391 RchiOBHm_Chr1g0379711 RchiOBHm_Chr3g0488481 RchiOBHm_Chr4g0387881 RchiOBHm_Chr5g0021331 RchiOBHm_Chr5g0021341 RchiOBHm_Chr5g0021351 RchiOBHm_Chr6g0274441 RchiOBHm_Chr7g0196751 RchiOBHm_Chr7g0196771
rosa_laevigata RLG00000003992 RLG00000008392 RLG00000009018 RLG00000013542 RLG00000026364 RLG00000026365 RLG00000026438 RLG00000032605
rosa_multiflora Rmu_co8309643.1_g000001 Rmu_co8423093.1_g000001 Rmu_co8520529.1_g000002 Rmu_sc0000938.1_g000001 Rmu_sc0001083.1_g000031 Rmu_sc0001289.1_g000016 Rmu_sc0001777.1_g000013 Rmu_sc0003392.1_g000006 Rmu_sc0003600.1_g000010 Rmu_sc0004484.1_g000024 Rmu_sc0004847.1_g000017 Rmu_sc0009850.1_g000016 Rmu_sc0013411.1_g000009 Rmu_sc0024337.1_g000001 Rmu_sc0024338.1_g000001 Rmu_sc0029385.1_g000001 Rmu_sc0039495.1_g000001 Rmu_ssc0000259.1_g000042
rosa_roxburghii Rroxscaffold_1G00057180 Rroxscaffold_3G00258970 Rroxscaffold_3G00258980 Rroxscaffold_4G00280480 Rroxscaffold_7G00194220 Rroxscaffold_7G00197660
rosa_rugosa Rorug01G0408500 Rorug05G0066400 Rorug05G0066500 Rorug06G0081900 Rorug07G0036200
rosa_samantha Rh1AG083900 Rh1AG430000 Rh1AG438200 Rh1AG438300 Rh1BG387700 Rh1BG394700 Rh1BG394800 Rh1CG081800 Rh1CG401200 Rh1CG407700 Rh1CG407800 Rh1DG327400 Rh1DG418800 Rh1DG425100 Rh1DG425200 Rh2AG541400 Rh2CG384100 Rh2CG524100 Rh4DG107200 Rh5AG155400 Rh5AG155500 Rh5AG155600 Rh5BG155000 Rh5BG155100 Rh5CG168500 Rh5CG168600 Rh5CG168700 Rh5DG155600 Rh6AG198300 Rh6BG201600 Rh6BG491300 Rh6CG202400 Rh6DG192800 Rh7AG160000 Rh7AG160100 Rh7BG162200 Rh7CG168600 Rh7DG161300
rosa_wichuraiana Rw1G037630 Rw5G013860 Rw6G017240 Rw7G013990

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccBSI CCGCTC 1 cut(s) 628
AciI CCGC 1 cut(s) 626
AcoI YGGCCR 1 cut(s) 27
AcsI RAATTY 2 cut(s) 20, 208
AfaI GTAC 4 cut(s) 14, 148, 215, 224
AgsI TTSAA 4 cut(s) 181, 362, 556, 670
AjnI CCWGG 1 cut(s) 436
AluBI AGCT 4 cut(s) 449, 571, 688, 743
AluI AGCT 4 cut(s) 449, 571, 688, 743
Alw21I GWGCWC 1 cut(s) 690
Alw26I GTCTC 1 cut(s) 438
AoxI GGCC 1 cut(s) 27
ApeKI GCWGC 1 cut(s) 353
ApoI RAATTY 2 cut(s) 20, 208
ArsI GACNNNNNNTTYG 2 cut(s) 61, 93
AspS9I GGNCC 3 cut(s) 307, 440, 493
AsuC2I CCSGG 1 cut(s) 311
AsuHPI GGTGA 1 cut(s) 453
AvaII GGWCC 3 cut(s) 307, 440, 493
BanII GRGCYC 2 cut(s) 170, 690
BarI GAAGNNNNNNTAC 2 cut(s) 96, 128
BbsI GAAGAC 1 cut(s) 677
Bbv12I GWGCWC 1 cut(s) 690
BbvI GCAGC 1 cut(s) 340
BceAI ACGGC 1 cut(s) 87
BciT130I CCWGG 1 cut(s) 438
BciVI GTATCC 1 cut(s) 495
BcnI CCSGG 1 cut(s) 311
BcoDI GTCTC 1 cut(s) 438
BfaI CTAG 1 cut(s) 158
BfmI CTRYAG 1 cut(s) 578
BfuI GTATCC 1 cut(s) 495
BisI GCNGC 2 cut(s) 354, 626
BlsI GCNGC 2 cut(s) 355, 627
BmcAI AGTACT 1 cut(s) 224
Bme1390I CCNGG 2 cut(s) 311, 438
Bme18I GGWCC 3 cut(s) 307, 440, 493
BmgT120I GGNCC 3 cut(s) 307, 440, 493
BmrFI CCNGG 2 cut(s) 311, 438
BpiI GAAGAC 1 cut(s) 677
BpuMI CCSGG 1 cut(s) 311
BsaJI CCNNGG 3 cut(s) 116, 189, 586
Bse1I ACTGG 2 cut(s) 322, 495
BseBI CCWGG 1 cut(s) 438
BseDI CCNNGG 3 cut(s) 116, 189, 586
BseGI GGATG 2 cut(s) 10, 607
BseNI ACTGG 2 cut(s) 322, 495
BseXI GCAGC 1 cut(s) 340
BseYI CCCAGC 1 cut(s) 131
BshFI GGCC 1 cut(s) 29
BsiHKAI GWGCWC 1 cut(s) 690
BsiSI CCGG 1 cut(s) 310
BslFI GGGAC 1 cut(s) 55
BsmAI GTCTC 1 cut(s) 438
BsmFI GGGAC 1 cut(s) 55
BsmI GAATGC 1 cut(s) 142
BsnI GGCC 1 cut(s) 29
Bsp1286I GDGCHC 2 cut(s) 170, 690
Bsp1407I TGTACA 1 cut(s) 213
BspACI CCGC 1 cut(s) 626
BspANI GGCC 1 cut(s) 29
BsrBI CCGCTC 1 cut(s) 628
BsrGI TGTACA 1 cut(s) 213
BsrI ACTGG 2 cut(s) 322, 495
BssECI CCNNGG 3 cut(s) 116, 189, 586
BssT1I CCWWGG 3 cut(s) 116, 189, 586
Bst2UI CCWGG 1 cut(s) 438
Bst4CI ACNGT 3 cut(s) 563, 676, 703
BstAUI TGTACA 1 cut(s) 213
BstC8I GCNNGC 1 cut(s) 385
BstF5I GGATG 2 cut(s) 10, 607
BstMAI GTCTC 1 cut(s) 438
BstMWI GCNNNNNNNGC 3 cut(s) 80, 137, 694
BstNI CCWGG 1 cut(s) 438
BstNSI RCATGY 1 cut(s) 96
BstSCI CCNGG 2 cut(s) 309, 436
BstSFI CTRYAG 1 cut(s) 578
BstV1I GCAGC 1 cut(s) 340
BstV2I GAAGAC 1 cut(s) 677
BstXI CCANNNNNNTGG 1 cut(s) 476
BsuI GTATCC 1 cut(s) 495
BsuRI GGCC 1 cut(s) 29
BtsCI GGATG 2 cut(s) 10, 607
BtsI GCAGTG 1 cut(s) 732
BtsIMutI CAGTG 2 cut(s) 488, 732
Cac8I GCNNGC 1 cut(s) 385
Cfr13I GGNCC 3 cut(s) 307, 440, 493
Csp6I GTAC 4 cut(s) 13, 147, 214, 223
CviAII CATG 3 cut(s) 93, 270, 388
CviQI GTAC 4 cut(s) 13, 147, 214, 223
EaeI YGGCCR 1 cut(s) 27
Ecl136II GAGCTC 1 cut(s) 688
Eco130I CCWWGG 3 cut(s) 116, 189, 586
Eco24I GRGCYC 2 cut(s) 170, 690
Eco47I GGWCC 3 cut(s) 307, 440, 493
Eco53kI GAGCTC 1 cut(s) 688
EcoICRI GAGCTC 1 cut(s) 688
EcoRII CCWGG 1 cut(s) 436
EcoT14I CCWWGG 3 cut(s) 116, 189, 586
EcoT38I GRGCYC 2 cut(s) 170, 690
ErhI CCWWGG 3 cut(s) 116, 189, 586
FaeI CATG 3 cut(s) 96, 273, 391
FaiI YATR 8 cut(s) 94, 198, 271, 336, 351, 389, 431, 534
FaqI GGGAC 1 cut(s) 55
FatI CATG 3 cut(s) 92, 269, 387
Fnu4HI GCNGC 2 cut(s) 354, 626
FokI GGATG 2 cut(s) 17, 614
FriOI GRGCYC 2 cut(s) 170, 690
Fsp4HI GCNGC 2 cut(s) 354, 626
FspBI CTAG 1 cut(s) 158
GluI GCNGC 2 cut(s) 354, 626
GsaI CCCAGC 1 cut(s) 135
HaeIII GGCC 1 cut(s) 29
HapII CCGG 1 cut(s) 310
Hin1II CATG 3 cut(s) 96, 273, 391
HincII GTYRAC 1 cut(s) 124
HindII GTYRAC 1 cut(s) 124
HindIII AAGCTT 1 cut(s) 741
HinfI GANTC 4 cut(s) 32, 53, 591, 611
HpaI GTTAAC 1 cut(s) 124
HpaII CCGG 1 cut(s) 310
HphI GGTGA 1 cut(s) 453
Hpy166II GTNNAC 3 cut(s) 124, 549, 610
Hpy188I TCNGA 4 cut(s) 52, 401, 616, 680
Hpy188III TCNNGA 3 cut(s) 239, 538, 595
Hpy8I GTNNAC 3 cut(s) 124, 549, 610
HpyAV CCTTC 2 cut(s) 298, 592
HpyCH4III ACNGT 3 cut(s) 563, 676, 703
HpyCH4V TGCA 3 cut(s) 96, 294, 383
HpyF10VI GCNNNNNNNGC 3 cut(s) 80, 137, 694
Hsp92II CATG 3 cut(s) 96, 273, 391
KspAI GTTAAC 1 cut(s) 124
Lsp1109I GCAGC 1 cut(s) 340
MaeI CTAG 1 cut(s) 158
MaeIII GTNAC 1 cut(s) 459
MbiI CCGCTC 1 cut(s) 628
MboII GAAGA 4 cut(s) 104, 523, 526, 682
MfeI CAATTG 1 cut(s) 691
MhlI GDGCHC 2 cut(s) 170, 690
MluCI AATT 5 cut(s) 20, 97, 208, 529, 691
MlyI GAGTC 2 cut(s) 41, 605
MnlI CCTC 6 cut(s) 195, 339, 432, 506, 534, 723
MseI TTAA 1 cut(s) 123
MspI CCGG 1 cut(s) 310
MspR9I CCNGG 2 cut(s) 311, 438
MunI CAATTG 1 cut(s) 691
Mva1269I GAATGC 1 cut(s) 142
MvaI CCWGG 1 cut(s) 438
MwoI GCNNNNNNNGC 3 cut(s) 80, 137, 694
NciI CCSGG 1 cut(s) 311
NlaIII CATG 3 cut(s) 96, 273, 391
NmeAIII GCCGAG 1 cut(s) 55
NmuCI GTSAC 1 cut(s) 459
NspI RCATGY 1 cut(s) 96
PctI GAATGC 1 cut(s) 142
PfeI GAWTC 2 cut(s) 53, 591
PflFI GACNNNGTC 1 cut(s) 46
PfoI TCCNGGA 1 cut(s) 436
PkrI GCNGC 2 cut(s) 355, 627
PleI GAGTC 2 cut(s) 40, 605
PpsI GAGTC 2 cut(s) 40, 605
Psp124BI GAGCTC 1 cut(s) 690
Psp6I CCWGG 1 cut(s) 436
PspFI CCCAGC 1 cut(s) 131
PspGI CCWGG 1 cut(s) 436
PspPI GGNCC 3 cut(s) 307, 440, 493
PsyI GACNNNGTC 1 cut(s) 46
RsaI GTAC 4 cut(s) 14, 148, 215, 224
RsaNI GTAC 4 cut(s) 13, 147, 214, 223
SacI GAGCTC 1 cut(s) 690
SaqAI TTAA 1 cut(s) 123
SatI GCNGC 2 cut(s) 354, 626
Sau96I GGNCC 3 cut(s) 307, 440, 493
ScaI AGTACT 1 cut(s) 224
SchI GAGTC 2 cut(s) 41, 605
ScrFI CCNGG 2 cut(s) 311, 438
SduI GDGCHC 2 cut(s) 170, 690
SfcI CTRYAG 1 cut(s) 578
SinI GGWCC 3 cut(s) 307, 440, 493
Sse9I AATT 5 cut(s) 20, 97, 208, 529, 691
SsiI CCGC 1 cut(s) 626
SspI AATATT 1 cut(s) 283
SspMI CTAG 1 cut(s) 158
SstI GAGCTC 1 cut(s) 690
StyD4I CCNGG 2 cut(s) 309, 436
StyI CCWWGG 3 cut(s) 116, 189, 586
TaaI ACNGT 3 cut(s) 563, 676, 703
TaqI TCGA 2 cut(s) 219, 452
TasI AATT 5 cut(s) 20, 97, 208, 529, 691
TatI WGTACW 3 cut(s) 146, 213, 222
TauI GCSGC 1 cut(s) 628
TfiI GAWTC 2 cut(s) 53, 591
Tru1I TTAA 1 cut(s) 123
Tru9I TTAA 1 cut(s) 123
TscAI CASTG 2 cut(s) 495, 732
TseFI GTSAC 1 cut(s) 459
TseI GCWGC 1 cut(s) 353
Tsp45I GTSAC 1 cut(s) 459
TspDTI ATGAA 3 cut(s) 258, 317, 533
TspRI CASTG 2 cut(s) 495, 732
Tth111I GACNNNGTC 1 cut(s) 46
VpaK11BI GGWCC 3 cut(s) 307, 440, 493
XapI RAATTY 2 cut(s) 20, 208
XceI RCATGY 1 cut(s) 96
XspI CTAG 1 cut(s) 158
ZrmI AGTACT 1 cut(s) 224
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.