Figure 3c. Gene Ontology enrichment of genes whose exons overlap structural variants											
GO ID	GO term	Ontology	Species	Gene count	GeneRatio	BgRatio	p value	Adjusted p value (Benjamini-Hochberg)	q value	-log10(adjusted p value)	Gene IDs
GO:0035435	phosphate ion transmembrane transport	biological process	S. persica ssp. iranica	11	11/1485	14/18537	2.44460299013213e-10	3.18531769614217e-07	2.94381665338017e-07	6.49684724565182	SaEuI19748/SaEuI19750/SaEuI19802/SaEuI19803/SaEuI19804/SaEuI19805/SaEuI19806/SaEuI19807/SaEuI19808/SaEuI19809/SaEuI19810
GO:0035435	phosphate ion transmembrane transport	biological process	S. brachiata	1	1/894	14/18537	0.499558066816074	0.940726229718581	0.845543857110939	0.0265367466275263	SaEuI19803
GO:0009651	response to salt stress	biological process	S. sinus-persica	4	4/386	437/18537	0.982076281961878	0.99971647323429	0.88978335145592	0.000123151569027851	SaEuI03076/SaEuI12565/SaEuI16776/SaEuI20918
GO:0009651	response to salt stress	biological process	S. persica ssp. iranica	66	66/1485	437/18537	3.99153409462115e-07	0.0001300242231322	0.0001201661843222	3.88597573236495	SaEuI03436/SaEuI06531/SaEuI07797/SaEuI07870/SaEuI07903/SaEuI07959/SaEuI07960/SaEuI07961/SaEuI07979/SaEuI07987/SaEuI08000/SaEuI08001/SaEuI08002/SaEuI08031/SaEuI10267/SaEuI10998/SaEuI16776/SaEuI19098/SaEuI19099/SaEuI19100/SaEuI19124/SaEuI19156/SaEuI19157/SaEuI19158/SaEuI19193/SaEuI19259/SaEuI19288/SaEuI19292/SaEuI19297/SaEuI19302/SaEuI19305/SaEuI19306/SaEuI19320/SaEuI19321/SaEuI19417/SaEuI19453/SaEuI19454/SaEuI19527/SaEuI19530/SaEuI19569/SaEuI19570/SaEuI19571/SaEuI19594/SaEuI19638/SaEuI19639/SaEuI19661/SaEuI19662/SaEuI19793/SaEuI19794/SaEuI19859/SaEuI19866/SaEuI19869/SaEuI19870/SaEuI19886/SaEuI19893/SaEuI19894/SaEuI19895/SaEuI19896/SaEuI19950/SaEuI19951/SaEuI19953/SaEuI21706/SaEuI21707/SaEuI21708/SaEuI21770/SaEuI21783
GO:0009651	response to salt stress	biological process	S. brachiata	14	14/894	437/18537	0.9632390048787	0.999851482135442	0.898686835803226	6.45052792533576e-05	SaEuI01533/SaEuI05803/SaEuI06531/SaEuI10998/SaEuI11224/SaEuI11226/SaEuI11227/SaEuI11229/SaEuI12006/SaEuI12063/SaEuI12064/SaEuI12077/SaEuI13834/SaEuI21301
GO:0006970	response to osmotic stress	biological process	S. sinus-persica	5	5/386	496/18537	0.978662753019304	0.99971647323429	0.88978335145592	0.000123151569027851	SaEuI03076/SaEuI08647/SaEuI12565/SaEuI16776/SaEuI20918
GO:0006970	response to osmotic stress	biological process	S. persica ssp. iranica	72	72/1485	496/18537	5.64223922008004e-07	0.0001633741711947	0.0001509876413513	3.78681660260333	SaEuI03436/SaEuI06530/SaEuI06531/SaEuI07797/SaEuI07870/SaEuI07903/SaEuI07959/SaEuI07960/SaEuI07961/SaEuI07979/SaEuI07987/SaEuI08000/SaEuI08001/SaEuI08002/SaEuI08031/SaEuI10267/SaEuI10998/SaEuI16776/SaEuI19098/SaEuI19099/SaEuI19100/SaEuI19124/SaEuI19155/SaEuI19156/SaEuI19157/SaEuI19158/SaEuI19193/SaEuI19227/SaEuI19228/SaEuI19259/SaEuI19288/SaEuI19292/SaEuI19297/SaEuI19302/SaEuI19305/SaEuI19306/SaEuI19310/SaEuI19320/SaEuI19321/SaEuI19380/SaEuI19417/SaEuI19453/SaEuI19454/SaEuI19527/SaEuI19530/SaEuI19569/SaEuI19570/SaEuI19571/SaEuI19594/SaEuI19638/SaEuI19639/SaEuI19661/SaEuI19662/SaEuI19793/SaEuI19794/SaEuI19859/SaEuI19866/SaEuI19869/SaEuI19870/SaEuI19886/SaEuI19893/SaEuI19894/SaEuI19895/SaEuI19896/SaEuI19950/SaEuI19951/SaEuI19953/SaEuI21706/SaEuI21707/SaEuI21708/SaEuI21770/SaEuI21783
GO:0006970	response to osmotic stress	biological process	S. brachiata	16	16/894	496/18537	0.969327904417395	0.999851482135442	0.898686835803226	6.45052792533576e-05	SaEuI01533/SaEuI05803/SaEuI06530/SaEuI06531/SaEuI08647/SaEuI10998/SaEuI11224/SaEuI11226/SaEuI11227/SaEuI11229/SaEuI12006/SaEuI12063/SaEuI12064/SaEuI12077/SaEuI13834/SaEuI21301
GO:0019725	cellular homeostasis	biological process	S. sinus-persica	19	19/386	197/18537	3.25290540955836e-08	1.181360037764e-06	1.05145260863517e-06	5.92761772424523	SaEuI05497/SaEuI12110/SaEuI12111/SaEuI16414/SaEuI16415/SaEuI16416/SaEuI16417/SaEuI16418/SaEuI16420/SaEuI16422/SaEuI16424/SaEuI16425/SaEuI16426/SaEuI16427/SaEuI16428/SaEuI16433/SaEuI16434/SaEuI16776/SaEuI19008
GO:0019725	cellular homeostasis	biological process	S. persica ssp. iranica	14	14/1485	197/18537	0.718502673217977	0.999885101498119	0.924076872087771	4.99026522707453e-05	SaEuI07781/SaEuI07782/SaEuI07783/SaEuI07784/SaEuI08084/SaEuI16776/SaEuI19006/SaEuI19007/SaEuI19149/SaEuI19230/SaEuI19560/SaEuI19799/SaEuI21765/SaEuI21782
GO:0019725	cellular homeostasis	biological process	S. brachiata	30	30/894	197/18537	2.20739933540974e-08	3.01245085773564e-06	2.70765206405368e-06	5.52108002902731	SaEuI09380/SaEuI09401/SaEuI09406/SaEuI09453/SaEuI10306/SaEuI11226/SaEuI11227/SaEuI11229/SaEuI12010/SaEuI12011/SaEuI13870/SaEuI13891/SaEuI13911/SaEuI14286/SaEuI14288/SaEuI16414/SaEuI16415/SaEuI16416/SaEuI16417/SaEuI16418/SaEuI16420/SaEuI16422/SaEuI16424/SaEuI16425/SaEuI16426/SaEuI16427/SaEuI16428/SaEuI16433/SaEuI16434/SaEuI18385
GO:0098655	monoatomic cation transmembrane transport	biological process	S. sinus-persica	28	28/386	282/18537	8.44454873466103e-12	5.23913877746262e-10	4.6630205512887e-10	9.28074009754595	SaEuI04314/SaEuI04317/SaEuI12110/SaEuI12111/SaEuI14081/SaEuI14082/SaEuI14083/SaEuI14085/SaEuI14086/SaEuI14088/SaEuI14089/SaEuI14091/SaEuI16408/SaEuI16414/SaEuI16415/SaEuI16416/SaEuI16417/SaEuI16418/SaEuI16420/SaEuI16422/SaEuI16424/SaEuI16425/SaEuI16426/SaEuI16427/SaEuI16428/SaEuI16433/SaEuI16434/SaEuI20918
GO:0098655	monoatomic cation transmembrane transport	biological process	S. persica ssp. iranica	17	17/1485	282/18537	0.915607570637176	0.999885101498119	0.924076872087771	4.99026522707453e-05	SaEuI02260/SaEuI02261/SaEuI08847/SaEuI19075/SaEuI19156/SaEuI19157/SaEuI19158/SaEuI19361/SaEuI19444/SaEuI19543/SaEuI19952/SaEuI21671/SaEuI21676/SaEuI21678/SaEuI21679/SaEuI21765/SaEuI21783
GO:0098655	monoatomic cation transmembrane transport	biological process	S. brachiata	25	25/894	282/18537	0.0025632594225668	0.051669359559414	0.0464414706384751	1.28676692149162	SaEuI01083/SaEuI01084/SaEuI04314/SaEuI04317/SaEuI09418/SaEuI11193/SaEuI11250/SaEuI12010/SaEuI12011/SaEuI16408/SaEuI16414/SaEuI16415/SaEuI16416/SaEuI16417/SaEuI16418/SaEuI16420/SaEuI16422/SaEuI16424/SaEuI16425/SaEuI16426/SaEuI16427/SaEuI16428/SaEuI16433/SaEuI16434/SaEuI19075
GO:0022890	inorganic cation transmembrane transporter activity	molecular function	S. sinus-persica	28	28/386	231/18537	6.05508284145611e-14	6.01067890061877e-12	5.34971880518824e-12	11.221076472067	SaEuI04314/SaEuI04317/SaEuI12110/SaEuI12111/SaEuI14081/SaEuI14082/SaEuI14083/SaEuI14085/SaEuI14086/SaEuI14088/SaEuI14089/SaEuI14091/SaEuI16408/SaEuI16414/SaEuI16415/SaEuI16416/SaEuI16417/SaEuI16418/SaEuI16420/SaEuI16422/SaEuI16424/SaEuI16425/SaEuI16426/SaEuI16427/SaEuI16428/SaEuI16433/SaEuI16434/SaEuI20918
GO:0022890	inorganic cation transmembrane transporter activity	molecular function	S. persica ssp. iranica	12	12/1485	231/18537	0.963205570800805	0.999885101498119	0.924076872087771	4.99026522707453e-05	SaEuI02260/SaEuI02261/SaEuI19156/SaEuI19157/SaEuI19158/SaEuI19361/SaEuI21671/SaEuI21676/SaEuI21678/SaEuI21679/SaEuI21765/SaEuI21783
GO:0022890	inorganic cation transmembrane transporter activity	molecular function	S. brachiata	23	23/894	231/18537	0.0008220277899331	0.0202791608559223	0.0182273219852913	1.69295001990983	SaEuI01083/SaEuI01084/SaEuI04314/SaEuI04317/SaEuI09418/SaEuI11193/SaEuI12010/SaEuI12011/SaEuI16408/SaEuI16414/SaEuI16415/SaEuI16416/SaEuI16417/SaEuI16418/SaEuI16420/SaEuI16422/SaEuI16424/SaEuI16425/SaEuI16426/SaEuI16427/SaEuI16428/SaEuI16433/SaEuI16434
GO:0051238	sequestering of metal ion	biological process	S. sinus-persica	14	14/386	26/18537	1.75582682794147e-17	3.26803268350607e-15	2.90866575839252e-15	14.4857136087506	SaEuI16414/SaEuI16415/SaEuI16416/SaEuI16417/SaEuI16418/SaEuI16420/SaEuI16422/SaEuI16424/SaEuI16425/SaEuI16426/SaEuI16427/SaEuI16428/SaEuI16433/SaEuI16434
GO:0051238	sequestering of metal ion	biological process	S. persica ssp. iranica	2	2/1485	26/18537	0.627870107375068	0.999885101498119	0.924076872087771	4.99026522707453e-05	SaEuI07826/SaEuI07827
GO:0051238	sequestering of metal ion	biological process	S. brachiata	14	14/894	26/18537	1.87324934762565e-12	5.43242310811438e-10	4.88277231269264e-10	9.26500641207747	SaEuI16414/SaEuI16415/SaEuI16416/SaEuI16417/SaEuI16418/SaEuI16420/SaEuI16422/SaEuI16424/SaEuI16425/SaEuI16426/SaEuI16427/SaEuI16428/SaEuI16433/SaEuI16434
GO:0055071	manganese ion homeostasis	biological process	S. sinus-persica	14	14/386	24/18537	3.7031527134913e-18	1.10279887807771e-15	9.81530371849589e-16	14.9575036843915	SaEuI16414/SaEuI16415/SaEuI16416/SaEuI16417/SaEuI16418/SaEuI16420/SaEuI16422/SaEuI16424/SaEuI16425/SaEuI16426/SaEuI16427/SaEuI16428/SaEuI16433/SaEuI16434
GO:0055071	manganese ion homeostasis	biological process	S. brachiata	14	14/894	24/18537	4.16468285930952e-13	1.93241284671962e-10	1.73689194616677e-10	9.71390008397744	SaEuI16414/SaEuI16415/SaEuI16416/SaEuI16417/SaEuI16418/SaEuI16420/SaEuI16422/SaEuI16424/SaEuI16425/SaEuI16426/SaEuI16427/SaEuI16428/SaEuI16433/SaEuI16434
GO:0010168	endoplasmic reticulum body	cellular component	S. sinus-persica	14	14/386	20/18537	7.89375172284746e-20	8.65014496630753e-17	7.69893783364404e-17	16.0629766142069	SaEuI16414/SaEuI16415/SaEuI16416/SaEuI16417/SaEuI16418/SaEuI16420/SaEuI16422/SaEuI16424/SaEuI16425/SaEuI16426/SaEuI16427/SaEuI16428/SaEuI16433/SaEuI16434
GO:0010168	endoplasmic reticulum body	cellular component	S. brachiata	14	14/894	20/18537	9.86559137360717e-15	1.64056893326828e-11	1.47457670453923e-11	10.7850055167506	SaEuI16414/SaEuI16415/SaEuI16416/SaEuI16417/SaEuI16418/SaEuI16420/SaEuI16422/SaEuI16424/SaEuI16425/SaEuI16426/SaEuI16427/SaEuI16428/SaEuI16433/SaEuI16434
